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CACNA1F Gene

protein-coding   GIFtS: 64

GC0XM046718
calcium channel, voltage-dependent, L type, alpha 1F subunit
Symbol approved by the HUGO Gene Nomenclature Committee (HGNC) database
(Previous symbol: CSNB2)
Products    

(According to 1HGNC, 2Entrez Gene,
3UniProtKB/Swiss-Prot, 4UniProtKB/TrEMBL, 5OMIM, 6GeneLoc , and/or 7Ensembl, 8miRBase)
About This Section

Aliases & Descriptions
calcium channel, voltage-dependent, L type, alpha 1F subunit1 2     OA22 5
CORDX31 2 5     CSNB22 5
CSNB2A1 2 5     AIED2 5
COD41 2     Cav1.4alpha12
Cav1.41 2     voltage-dependent L-type calcium channel subunit alpha-1F2
CSNBX21 2     CORDX2
JMC81 2     OTTHUMP000000242992
JM81 2     COD32
Voltage-gated calcium channel subunit alpha Cav1.42 3     CACNAF13

External Ids:    HGNC: 13931   Entrez Gene: 7782   Ensembl: ENSG000001020017   UniProtKB: O608403   

Export aliases for CACNA1F gene to outside databases

Previous GC identifers: GC0XM047844 GC0XM047302 GC0XM047868 GC0XM048087 GC0XM048817 GC0XM048948 GC0XM049061


(According to Entrez Gene, Tocris Bioscience, Wikipedia's Gene Wiki,
UniProtKB/Swiss-Prot, and/or UniProtKB/TrEMBL)
About This Section

Entrez Gene summary for CACNA1F:
This gene encodes a member of the alpha-1 subunit family; a protein in the voltage-dependent calcium channel complex.
Calcium channels mediate the influx of calcium ions into the cell upon membrane polarization and consist of a complex
of alpha-1, alpha-2/delta, beta, and gamma subunits in a 1:1:1:1 ratio. The alpha-1 subunit has 24 transmembrane
segments and forms the pore through which ions pass into the cell. There are multiple isoforms of each of the proteins
in the complex, either encoded by different genes or the result of alternative splicing of transcripts. Alternate
transcriptional splice variants of the gene described here have been observed but have not been thoroughly
characterized. Mutations in this gene have been shown to cause incomplete X-linked congential stationary night
blindness type 2 (CSNB2). (provided by RefSeq)

UniProtKB/Swiss-Prot: CAC1F_HUMAN, O60840
Function: Voltage-sensitive calcium channels (VSCC) mediate the entry of calcium ions into excitable cells and are also
involved in a variety of calcium-dependent processes, including muscle contraction, hormone or neurotransmitter
release, gene expression, cell motility, cell division and cell death. The isoform alpha-1F gives rise to L-type
calcium currents. Long-lasting (L-type) calcium channels belong to the 'high-voltage activated' (HVA) group. They are
blocked by dihydropyridines (DHP), phenylalkylamines, benzothiazepines, and by omega-agatoxin-IIIA (omega-Aga-IIIA).
They are however insensitive to omega-conotoxin-GVIA (omega-CTx-GVIA) and omega-agatoxin-IVA (omega-Aga-IVA)

summary for CACNA1F:
Voltage-gated calcium channels (CaV) are present in the membrane of most excitable cells and mediate calcium
influx in response to depolarisation. They regulate intracellular processes such as contraction, secretion,
neurotransmission and gene expression. Voltage-gated calcium channels are formed from four or five distinct
subunits; the alpha-subunit is the largest subunit and incorporates the voltage sensor, conduction pore and
gating apparatus. Using pharmacological and electrophysiological techniques, at least 6 types of
voltage-gated channels have been identified: L, N, P, Q, R and T, which are grouped into three families.
Cav1.x are high-voltage-activated dihydropyridine-sensitive (L-type), Cav2.x are high-voltage-activated
dihydropyridine-insensitive (N-, P- Q- and R-types) and Cav3.x are low-voltage-activated channels (T-type).


(According to GeneLoc and/or HGNC, and/or
Entrez Gene (NCBI build 37),
and/or miRBase,
Genomic Views according to UCSC (hg19) and Ensembl (release 60), Regulatory elements and Epigenetics data according to Qiagen and/or SABiosciences)
About This Section

Regulatory elements:
   SABiosciences Regulatory transcription factor binding sites in the CACNA1F gene promoter:
         IRF-7A   Max   c-Myc   C/EBPbeta   Arnt   SRF   LCR-F1   Nkx2-2   Pax-5   ARP-1   
         Other transcription factors

   Search SABiosciences Chromatin IP Primers for CACNA1F

Epigenetics:
QIAGEN PyroMark CpG Assay predesigned Pyrosequencing DNA Methylation assays 


Genomic Location:
Genomic View: UCSC Golden Path with GeneCards custom track

Entrez Gene cytogenetic band: Xp11.23   Ensembl cytogenetic band:  Xp11.23   HGNC cytogenetic band: Xp11.23

CACNA1F Gene in genomic location: bands according to Ensembl, locations according to (and/or Entrez Gene and/or Ensembl if different)
CACNA1F gene location

GeneLoc gene densities for chromosome X         GeneLoc Exon Structure

GeneLoc location for GC0XM046718:  view genomic region     (about GC identifiers)

Start:
46,718,790 bp from pter
End:
46,746,229 bp from pter
Size:
27,440 bases
Orientation:
minus strand

1 alternative location:
ChrX- 49,061,523-49,089,833     
RefSeq DNA sequence:
NC_000023.10  NT_079573.4  

(According to 1UniProtKB, neXtProt, and/or Ensembl, Phosphorylation sites according to 2Phosphosite, RefSeq according to NCBI, PDB rendering according to OCA and/or Proteopedia, Recombinant Proteins from Millipore, Sigma-Aldrich, R&D Systems, GenScript, Enzo Life Sciences, OriGene, Novus Biologicals, Sino Biological, and/or ProSpec,
Biochemical Assays by Millipore, Sigma-Aldrich, R&D Systems, OriGene, GenScript, Cell Signaling Technology, Enzo Life Sciences, and/or Uscn, Ontologies according to Gene Ontology Consortium 01 Dec 2010 and Entrez Gene, Antibodies by Millipore, Sigma-Aldrich, R&D Systems, GenScript, Cell Signaling Technology, OriGene, Novus Biologicals, and/or Epitomics)
About This Section

UniProtKB/Swiss-Prot: CAC1F_HUMAN, O60840 (See protein sequence)
Recommended Name: Voltage-dependent L-type calcium channel subunit alpha-1F  
Size: 1977 amino acids; 220678 Da
Subunit: Voltage-dependent calcium channels are multisubunit complexes, consisting of alpha-1, alpha-2, beta and delta
subunits in a 1:1:1:1 ratio. The channel activity is directed by the pore-forming and voltage-sensitive alpha-1
subunit. In many cases, this subunit is sufficient to generate voltage-sensitive calcium channel activity. The
auxiliary subunits beta and alpha-2/delta linked by a disulfide bridge regulate the channel activity. Interacts (via
IQ domain) with CABP4; in a calcium independent manner (By similarity)
Subcellular location: Membrane; Multi-pass membrane protein
Sequence caution: Sequence=AAB92359.1; Type=Erroneous gene model prediction;
Secondary accessions: A6NI29 O43901 Q9UHB1
Alternative splicing: 2 isoforms:  O60840-1   O60840-2   

Explore the universe of human proteins at neXtProt for CACNA1F: NX_O60840 

Post-translational modifications:

  • View phosphorylation sites using PhosphoSite2


  • REFSEQ proteins: NP_005174.2  

    ENSEMBL proteins: 
    ENSP00000321618 ENSP00000365441 ENSP00000365427 ENSP00000418961 


    Human Recombinant Proteins 
    Browse Purified and Recombinant Proteins at Millipore
    Browse Human Recombinant Proteins at Sigma-Aldrich
    Browse R&D Systems for human recombinant proteins
    Browse recombinant and purified proteins available from Enzo Life Sciences
    Browse OriGene full length recombinant human proteins expressed in human HEK293 cells
    Browse OriGene Protein Over-expression Lysates
    GenScript Custom Purified and Recombinant Proteins Services for CACNA1F 
    Novus Biologicals Protein for CACNA1F
    Browse Sino Biological Recombinant Proteins
    Browse ProSpec Recombinant Proteins

    3 Gene Ontology (GO) cellular component terms (GO ID links to tree view):

    GO IDQualified GO termEvidencePubMed IDs
    GO:0005891 voltage-gated calcium channel complex IDA15897456
    GO:0016020 membrane IEA--
    GO:0016021 integral to membrane IDA15897456
    About this table

    CACNA1F for ontologies           About GeneDecksing



    Antibodies for CACNA1F: 
    Browse Millipore's Extensive Line of Mono- and Polyclonal Antibodies
    Sigma-Aldrich Antibodies for CACNA1F
    Browse R&D Systems for Antibodies
    Browse OriGene Antibodies
    GenScript Custom Superior Antibodies Services for CACNA1F 
    Novus Biologicals Antibodies for CACNA1F
    Browse antibodies at Epitomics

    Assays for CACNA1F: 
    Browse Kits and Assays available from Millipore
    Browse ELISAs at Sigma-Aldrich
    OriGene Custom Immunoassay Development 
    Browse OriGene Fluorogenic Cell Assay Kits 
    Browse R&D Systems for biochemical assays
    GenScript Custom Assay Services for CACNA1F 
    Browse Enzo Life Sciences for kits & assays
    Browse ELISAs and CLIAs at Uscn 


    (According to InterPro, ProtoNet, UniProtKB, and/or BLOCKS, Sets of similar genes according to GeneDecks)
    About This Section

    CACNA1F for domains           About GeneDecksing

    4 InterPro domains/families:
     IPR005446 VDCC_L_a1su
     IPR014873 VDCC_a1su_IQ
     IPR005821 Ion_trans
     IPR002077 VDCCAlpha1

    Graphical View of Domain Structure for InterPro Entry O60840

    ProtoNet protein and cluster: O60840

    2 Blocks protein families:
    IPB002077 Calcium channel signature
    IPB005446 L-type voltage-dependent calcium channel alpha-1 subunit signature


    UniProtKB/Swiss-Prot: CAC1F_HUMAN, O60840
    Domain: Each of the four internal repeats contains five hydrophobic transmembrane segments (S1, S2, S3, S5, S6) and one
    positively charged transmembrane segment (S4). S4 segments probably represent the voltage-sensor and are characterized
    by a series of positively charged amino acids at every third position
    Similarity: Belongs to the calcium channel alpha-1 subunit (TC 1.A.1.11) family. CACNA1F subfamily


    (According to UniProtKB, IUBMB,and/or Genatlas, Animal models from MGI Dec 24 2010,
    shRNA from OriGene, Sigma-Aldrich, RNAi from Millipore, siRNAs from Sigma-Aldrich, OriGene, Qiagen, Super-pooled esiRNAs from Sigma-Aldrich, microRNA from Sigma-Aldrich, Qiagen, SABiosciences, Clones from Millipore, Sigma-Aldrich, OriGene, GenScript, Sino Biological, Cell Lines from GenScript, Ontologies according to Gene Ontology Consortium 01 Dec 2010 via Entrez Gene.)
    About This Section

    UniProtKB/Swiss-Prot: CAC1F_HUMAN, O60840
    Function: Voltage-sensitive calcium channels (VSCC) mediate the entry of calcium ions into excitable cells and are also
    involved in a variety of calcium-dependent processes, including muscle contraction, hormone or neurotransmitter
    release, gene expression, cell motility, cell division and cell death. The isoform alpha-1F gives rise to L-type
    calcium currents. Long-lasting (L-type) calcium channels belong to the 'high-voltage activated' (HVA) group. They are
    blocked by dihydropyridines (DHP), phenylalkylamines, benzothiazepines, and by omega-agatoxin-IIIA (omega-Aga-IIIA).
    They are however insensitive to omega-conotoxin-GVIA (omega-CTx-GVIA) and omega-agatoxin-IVA (omega-Aga-IVA)

    Inhib.
    RNA:
        
    Browse for Gene Knock-down Tools from Millipore
    Browse Nano Scale siRNA at Sigma-Aldrich
    Sigma-Aldrich siRNA Panels and esiRNA and siRNA for CACNA1F
    Sigma-Aldrich shRNA Panels and shRNA for CACNA1F
    OriGene 29mer shRNA kits in GFP-retroviral vector: CACNA1F
    OriGene shRNA RFP: CACNA1F
    OriGene basic RS shRNA: CACNA1F
    OriGene siRNA: CACNA1F
    QIAGEN FlexiTube/FlexiPlate siRNA for gene silencing of CACNA1F 
    miRNA:Browse microRNA Mimics at Sigma-Aldrich
    Browse microRNA target validation systems at Sigma-Aldrich 
    QIAGEN Custom miScript Target Protector blocks miRNA-binding site of CACNA1F 
    Search SABiosciences for Assays for microRNAs that regulate CACNA1F

    Gene
    Editing:
    Browse CompoZr Knockout ZFN at Sigma-Aldrich 

    Clones:Browse Clones for the Expression of Recombinant Proteins Available from Millipore
    Browse iPSC Reprogramming Factors at Sigma-Aldrich
    OriGene GFP tagged cDNA clones in CMV expression vector: CACNA1F
    OriGene Myc/DDK tagged cDNA clones in CMV expression vector: CACNA1F
    OriGene untagged cDNA clones in CMV expression vector: CACNA1F
    Browse 3'-UTR reporter clones for miRNA target validation 
    Browse MicroRNA Expression Plasmids 
    GenScript cDNA clone with any tag delivered in your preferred vector: CACNA1F 
    Browse Sino Biological Human cDNA Clones

    Cell
    Lines:
      
    GenScript Custom overexpressing Cell Line Services for CACNA1F 

    Genatlas biochemistry entry for CACNA1F:
    transverse tubule (TT) calcium voltage-gated channel (VDCC),L (long lasting) type,dihydropyridine (DHP) sensitive,alpha
    1F subunit,specifically expressed in retina

    4 Gene Ontology (GO) molecular function terms (GO ID links to tree view):

    GO IDQualified GO termEvidencePubMed IDs
    GO:0005216 ion channel activity ----
    GO:0005244 voltage-gated ion channel activity IEA--
    GO:0005245 voltage-gated calcium channel activity IDA15897456
    GO:0005515 protein binding IPI17474147
    About this table

    CACNA1F for ontologies           About GeneDecksing

    Animal Models: 3 MGI mutant phenotypes (inferred from 4 alleles(MGI details for Cacna1f):

    nervous systemno phenotypic analysisvision/eye

    CACNA1F for phenotypes           About GeneDecksing


    (Pathways according to Millipore, Cell Signaling Technology, Sigma-Aldrich, KEGG and/or UniProtKB, Sets of similar genes according to GeneDecks, PCR Arrays from SABiosciences, Proteins Network according to SABiosciences, Sigma-Aldrich, Interactions according to 1UniProtKB, 2MINT, and/or 3STRING, with links to IntAct and Ensembl, Ontologies according to Gene Ontology Consortium 01 Dec 2010 via Entrez Gene).
    About This Section


    CACNA1F for pathways           About GeneDecksing

    3 Millipore Pathways for CACNA1F
        Synaptic transmission- ion currents
    Transcription CREB pathway
    Calcium channels

    5/9 Kegg Pathways  (Kegg details for CACNA1F) (see all 9):
        hsa04010 MAPK signaling pathway
    hsa04020 Calcium signaling pathway
    hsa04260 Cardiac muscle contraction
    hsa04270 Vascular smooth muscle contraction
    hsa04912 GnRH signaling pathway

        SABiosciences Custom Pathway-Focused PCR Arrays for CACNA1F 

        SABiosciences Gene Network CentralTM Interacting Genes and Proteins Network for CACNA1F

    5/34 Interacting proteins for CACNA1F (ENSP000003654413 O608401, 2) via UniProtKB, MINT, and/or STRING (see all 34)
    InteractantInteraction Details
    GeneCardExternal ID(s)
    FYNP062411, 2EBI-1757401,EBI-515315 MINT-7247110
    CACNB4ENSP000002019433STRING: ENSP00000343563 STRING: ENSP00000201943
    CACNA1BENSP000002775493STRING: ENSP00000277549
    CACNA1CENSP000002663763STRING: ENSP00000266376
    CACNA1DENSP000002881393STRING: ENSP00000288139
    About this table

    5/10 Gene Ontology (GO) biological process terms (GO ID links to tree view) (see all 10):

    GO IDQualified GO termEvidencePubMed IDs
    GO:0006811 ion transport IEA--
    GO:0006816 calcium ion transport IEA--
    GO:0006874 cellular calcium ion homeostasis IEA--
    GO:0007409 axonogenesis ----
    GO:0007411 axon guidance TAS--
    About this table

    CACNA1F for ontologies           About GeneDecksing



    (Chemical Compounds according to UniProtKB, Enzo Life Sciences, Sigma-Aldrich, Tocris Bioscience, and/or Novoseek and Drugs according to Enzo Life Sciences and/or PharmGKB)
    About This Section

    CACNA1F for compounds           About GeneDecksing

    Browse Small Molecules at Sigma-Aldrich
    Browse drugs & compounds from Enzo Life Sciences

    Compounds for CACNA1F available from Tocris Bioscience
    CompoundAction CAS number
    FPL 64176Potent activator of Ca2+ channels (L-type)[120934-96-5]
    NimodipineCa2+ channel blocker (L-type)[66085-59-4]
    (S)-(-)-Bay K 8644Ca2+-channel activator (L-type)[98625-26-4]
    (±)-Bay K 8644Ca2+-channel activator (L-type)[71145-03-4]
    IsradipineCa2+ channel blocker (L-type)[75695-93-1]
    About this table


    1 Novoseek chemical compound relationship for CACNA1F gene
    Compound   -log (P-Val)   Hits   PubMed IDs for Articles with Shared Sentences (# sentences)
    calcium 47 13 11078833 (1), 11526344 (1), 12719097 (1), 14973233 (1) (see all 12)
    About this table



    (GenBank/EMBL/DDBJ Accessions according to
    Unigene (Build 228 Homo sapiens; Dec 8 2010) or GenBank,
    RefSeq according to Entrez Gene,
    DOTS (version 10), and/or AceView, transcript ids from Ensembl with links to UCSC,
    non coding RNAs according to RNAdb,
    ESTs according to GeneTide,
    exon structure from GeneLoc, alternative splicing isoforms according to ASD and/or ECgene,
    RNAi Products from Millipore,
    siRNAs from Sigma-Aldrich, OriGene, Qiagen, Super-pooled esiRNAs from Sigma-Aldrich,
    shRNA from Sigma-Aldrich, OriGene, microRNA from Sigma-Aldrich, Qiagen, SABiosciences,
    Tagged/untagged cDNA clones from OriGene, Sigma-Aldrich, GenScript, Primers from OriGene and/or SABiosciences)
    About This Section

    Inhib.
    RNA:
         
    Browse for Gene Knock-down Tools from Millipore
    Browse Nano Scale siRNA at Sigma-Aldrich
    Sigma-Aldrich siRNA Panels and esiRNA and siRNA for CACNA1F
    Sigma-Aldrich shRNA Panels and shRNA for CACNA1F
    OriGene 29mer shRNA kits in GFP-retroviral vector: CACNA1F
    OriGene shRNA RFP: CACNA1F
    OriGene basic RS shRNA: CACNA1F
    OriGene siRNA: CACNA1F
    QIAGEN FlexiTube/FlexiPlate siRNA for gene silencing of CACNA1F 
    miRNA: Browse microRNA Mimics at Sigma-Aldrich
    Browse microRNA target validation systems at Sigma-Aldrich 
    QIAGEN Custom miScript Target Protector blocks miRNA-binding site of CACNA1F 
    Search SABiosciences for Assays for microRNAs that regulate CACNA1F
    Clones: Browse FLAG tag genes at Sigma-Aldrich
    OriGene GFP tagged cDNA clones in CMV expression vector: CACNA1F
    OriGene Myc/DDK tagged cDNA clones in CMV expression vector: CACNA1F
    OriGene untagged cDNA clones in CMV expression vector: CACNA1F
    Browse 3'-UTR reporter clones for miRNA target validation 
    Browse OriGene MicroRNA Expression Plasmids 
    GenScript cDNA clone with any tag delivered in your preferred vector: CACNA1F 
    Primers:Browse OriGene genome-wide validated SYBR primer pairs
    Browse OriGene validated miRNA SYBR primer pairs 
    SABiosciences RT2 qPCR Primer Assay for CACNA1F: PPH01380A

    REFSEQ mRNAs for CACNA1F gene: 

    NM_005183.2  

    Additional cDNA sequence: 

    AF067227.1 AF201304.1 AJ224874.1 

    6 DOTS entries:

    DT.40280271  DT.100745280  DT.92069916  DT.100738011  DT.100745281  DT.101961842 

    24 AceView cDNA sequences:

    BM703915 BM681368 BM932223 BM684979 CK301055 AL712794 AF067227 BQ636841 
    NM_005183 CD369408 BX099776 AJ224874 AF201304 BM728193 BQ186213 BF847103 
    CD369391 AA317815 BU619350 BM685216 BM931932 BX642510 AA019974 AA019975 

    highest scoring ESTs for CACNA1F:

    AF067227 AF201304 AJ224874 AL712794 AA019975 AA317815 BF847103 BM681368 BM684979 BM685216 

    Unigene Cluster for CACNA1F:

    Calcium channel, voltage-dependent, L type, alpha 1F subunit
    Hs.632799  [show with all ESTs]
    Unigene Representative Sequence: NM_005183


    GeneLoc Exon Structure

    6 Ensembl transcripts including schematic representations, and UCSC links where relevant:
    ENST00000481035 ENST00000323022(uc010nip.2) ENST00000480889 ENST00000376265(uc004dnb.2)
    ENST00000376251 ENST00000486943

    (Experimental results according to 1GeneNote and GNF BioGPS,
    probe sets-to-genes annotations according to 2GeneAnnot , 3GeneTide , Sets of similar genes according to GeneDecks, Electronic Northern calculations according to data from UniGene (Build 228 Homo sapiens), SAGE tags according to CGAP, plus additional links to SOURCE, and/or GNF BioGPS, and/or EXPOLDB, and/or UniProtKB,
    Primers from OriGene and/or SABiosciences )
    About This Section

    CACNA1F expression in normal and diseased human tissues

    1  / 2  / 3

    3 probe-sets matching CACNA1F gene

    Affymetrix
    probe-set
    Array  GeneAnnot data GeneNote data GeneTide data
    # genes Sensitivity Specificity Correlation Length Gb_Accession Consensus Uniqueness Score Rank
    35584_s_at2, 3 U95-A 1 0.50 1.00 1.00 1.00 AJ006216 0.20 1.00 0.72 1
    208377_s_at2, 3 U133-A 1 0.73 1.00 -- -- NM_005183 0.60 1.00 0.82 1
    208377_s_at2 U133Plus2 1 0.73 1.00 -- -- -- -- -- -- --
    About this table

    CACNA1F for expression           About GeneDecksing

    Data from Genenote  (Publications) and GNF BioGPS
        About these images
    CACNA1F gene expression
    CACNA1F gene electronic northern expression
    CACNA1F gene sage expression
    About these images

    CGAP SAGE TAG: GACCACAAAA

    SOURCE GeneReport for Unigene cluster: Hs.632799

    Expression variation in blood from EXPOLDB for CACNA1F

    UniProtKB/Swiss-Prot: CAC1F_HUMAN, O60840
    Tissue specificity: Expression in skeletal muscle and retina

    Primers:Browse OriGene genome-wide validated SYBR primer pairs
    Browse OriGene validated miRNA SYBR primer pairs 
    SABiosciences RT2 qPCR Primer Assay for CACNA1F: PPH01380A
        SABiosciences Custom PCR Arrays for CACNA1F 


    (Orthologs according to 1,2HomoloGene (2older version, for species not in 1newer version), 3euGenes, 4SGD and/or 5MGI Dec 24 2010, with possible further links to Flybase and/or WormBase, Gene Trees according to Ensembl)
    About This Section

    Orthologs for CACNA1F gene from 5/7 species (see all 7)
    Organism Gene Locus Description Human
    Similarity
    NCBI accessions
    dog
    (Canis familiaris)
    CACNA1F1   -- calcium channel, voltage-dependent, L type, alpha 1F more 88.8(n)
    92.24(a)
    480915  XM_538035.2  XP_538035.2 
    cow
    (Bos taurus)
    CACNA1F1   -- calcium channel, voltage-dependent, L type, alpha 1F more 91(n)
    93.91(a)
    509779  XM_586812.3  XP_586812.3 
    rat
    (Rattus norvegicus)
    Cacna1f1   -- calcium channel, voltage-dependent, L type, alpha 1F more 86.64(n)
    91.45(a)
    114493  NM_053701.1  NP_446153.1 
    mouse
    (Mus musculus)
    Cacna1f1 , 5 X (3.42 cM)5
    calcium channel, voltage-dependent, alpha 1F subunit1, 5 87.66(n)1
    92.26(a)1
    546521  NM_019582.21  NP_062528.21 
     AF1924975  AJ5798525  (see all 13)
    zebrafish
    (Danio rerio)
    CH211-157C18.11   -- novel protein similar to vertebrate voltage-dependent more 68.32(n)
    73.57(a)
    559964  XM_683360.2  XP_688452.2 
    About this table        Species with no ortholog for CACNA1F

    ENSEMBL Gene Tree for CACNA1F (if available)

    (Paralogs according to 1HomoloGene
    and 2Ensembl, Pseudogenes according to 3Pseudogene.org)
    About This Section
    Paralogs for CACNA1F gene
    CACNA1A2  CACNA1C2  CACNA1S2  CACNA1D2  CACNA1E2  CACNA1B2  

    CACNA1F for paralogs           About GeneDecksing



    (SNPs according to the 1NCBI SNP Database, 2Ensembl, 3PupaSUITE, and UniProtKB, Linkage Disequilibrium by HapMap, Structural Variations(CNVs/InDels/Inversions) from the Database of Genomic Variants, Resequencing Primers from Qiagen)
    About This Section

    10/125 NCBI SNPs in CACNA1F are shown (see all 125)
    Genomic DataTranscription Related DataAllele Frequencies
    SNP IDValidChr X posSequenceRecsAA
    Chg
    TypeMoreRecsAllele
    freq
    PopTotal
    sample
    More
    ----------
    rs9261751,2
    C,F,O,A,H,49074801(+) GTGTCG/AGGTCC 1 -- int112Minor allele frequency- A:0.45NA NS EA 740
    rs20713151,2
    C49063046(+) GCCCTG/TGCGCT 2 K Q mis1 ref1 ese38Minor allele frequency- T:0.00NS EA 732
    rs20713161,2
    C,F,A,49069366(+) TAATCC/TGGAGG 1 -- int17Minor allele frequency- T:0.49NS EA NA 422
    rs20713171,2
    C,F,A,H,49070813(+) CTGAGG/ACGAGT 1 -- int17Minor allele frequency- A:0.49NS EA NA 422
    rs20758661,2
    C,F,O,A,49071964(-) GACCAC/TGGCCC 2 H syn1 ref1 ese315Minor allele frequency- A:0.03NS EA NA WA 916
    rs22351271,2
    C,F,A49081291(-) GTGGGC/TGCCAT 2 G ref1 syn16Minor allele frequency- T:0.49EA NS NA 372
    rs22727041,2
    C49082952(+) CACTGG/ACTGGG 2 /A /V ref1 mis1 ese34Minor allele frequency- A:0.00NS EA 418
    rs22837321,2
    C,H49073543(-) tactcG/Tggaag 1 -- int13Minor allele frequency- T:0.00NA WA 4
    rs22837331,2
    C,F,A,H,49073385(-) TCTAGT/CTcagt 1 -- int17Minor allele frequency- C:0.48NS EA NA 424
    rs28567481,2
    --49062200(+) CCCCCC/GCTGCG 2 A G ref1 mis1 ese30--------
    About this table

    HapMap Linkage Disequilibrium images for CACNA1F (up to first 250kb)
    Structural Variations (Copy Number Variations, Insertions/Deletions, Inversions)
    Database of Genomic Variants (DGV): 3 variations for CACNA1F
         3 CNVs: 0824 2278 7789

    QIAGEN SeqTarget long-range PCR primers for resequencing CACNA1F 

    (in which this Gene is Involved, According to OMIM, UniProtKB, Novoseek, PharmGKB, Genatlas, GeneTests, Blood group antigen gene mutations by BGMUT, LSDB, HGMD, GAD, HuGE Navigator, and/or TGDB.)
    About This Section

    CACNA1F for disorders           About GeneDecksing

    OMIM: 300110   disorders: 300071  300476  300600  

    UniProtKB/Swiss-Prot: CAC1F_HUMAN, O60840

  • Defects in CACNA1F are the cause of congenital stationary night blindness type 2A (CSNB2A) [MIM:300071].
  • Congenital stationary night blindness is a non-progressive retinal disorder characterized by impaired night vision
  • Defects in CACNA1F are the cause of cone-rod dystrophy X-linked type 3 (CORDX3) [MIM:300476]. CORDs are
  • inherited retinal dystrophies belonging to the group of pigmentary retinopathies. CORDs are characterized by retinal
    pigment deposits visible on fundus examination, predominantly in the macular region, and initial loss of cone
    photoreceptors followed by rod degeneration. This leads to decreased visual acuity and sensitivity in the central
    visual field, followed by loss of peripheral vision. Severe loss of vision occurs earlier than in retinitis pigmentosa
  • Defects in CACNA1F are the cause of Aaland island eye disease (AIED) [MIM:300600]; also known as
  • Forsius-Eriksson type ocular albinism. On the Aaland island in the Baltic Sea, AIED is an X-linked recessive retinal
    disease characterized by a combination of fundus hypopigmentation, decreased visual acuity due to foveal hypoplasia,
    nystagmus, astigmatism, protan color vision defect, myopia, and defective dark adaptation. Except for progression of
    axial myopia, the disease can be considered to be a stationary condition. Electroretinography reveals abnormalities in
    both photopic and scotopic functions

    7 Novoseek disease relationships for CACNA1F gene

    Disease   -log (P-Val)   Hits   PubMed IDs for Articles with Shared Sentences (# sentences)
    csnb2 99 35 20238058 (3), 15584351 (2), 9662400 (2), 16960802 (2) (see all 19)
    night blindness, congenital stationary 97.9 18 12719097 (2), 10900517 (1), 12860808 (1), 16505158 (1) (see all 16)
    csnb1 92.9 4 15584351 (1), 15583843 (1), 12187427 (1), 12610835 (1)
    oguchis disease 89.7 1 15584351 (1)
    night blindness 85.3 2 11078833 (1), 20238058 (1)
    retinopathy 61.5 7 15807819 (2), 16505158 (1), 12719097 (1), 11890456 (1) (see all 6)
    atrophy 6.37 6 12860808 (2), 12208270 (1)
    About this table

    GeneTests: CACNA1F
    Congenital Stationary Night Blindness

    Locus Specific Mutation Databases (LSDB): CACNA1F
    Human Gene Mutation Database (HGMD): CACNA1F
    Genetic Association Database (GAD): CACNA1F
    Human Genome Epidemiology (HuGE) Navigator: CACNA1F (2 documents)

    Export disorders and mutations for CACNA1F gene to outside databases

    (Possibly Related Articles in Doctor's Guide)
    About This Section
      --

    (in PubMed. Associations of this gene to articles via 1Entrez Gene, 2UniProtKB/Swiss-Prot, 3HGNC, 4GAD, 5PharmGKB, 6UniProtKB/TrEMBL, and/or 7Novoseek)
    About This Section

    10/53 PubMed articles for CACNA1F gene, integrated from 7 sources (see all 53):
    (articles sorted by number of sources associating them with CACNA1F)
    1. Sequence-based exon prediction around the synaptophysin locus reveals a gene-rich area containing novel genes in human proximal Xp. (PubMed id 9344658)1, 2, 3 Fisher S.E.... Craig I.W. (1997)
    2. X linked cone-rod dystrophy, CORDX3, is caused by a mutation in the CACNA1F gene. (PubMed id 16505158)1, 2, 7 Jalkanen R.... Bech-Hansen N.T. (2006)
    3. Retinal and optic disc atrophy associated with a CACNA1F mutation in a Japanese family. (PubMed id 12860808)1, 4, 7 Nakamura M....Miyake Y. (2003)
    4. A CACNA1F mutation identified in an X-linked retinal disorder shifts the voltage dependence of Cav1.4 channel activation. (PubMed id 15897456)1, 2, 7 Hemara-Wahanui A.... Maw M.A. (2005)
    5. A novel CACNA1F gene mutation causes Aland Island eye disease. (PubMed id 17525176)1, 2, 7 Jalkanen R.... Alitalo T. (2007)
    6. Mutations in CABP4, the gene encoding the Ca2+-binding protein 4, cause autosomal recessive night blindness. (PubMed id 16960802)1, 2, 7 Zeitz C.... Berger W. (2006)
    7. Isolation and characterization of a calcium channel gene, cacna1f, the murine orthologue of the gene for incomplete X-linked congenital stationary night blindness. (PubMed id 10873387)1, 2, 7 Naylor M.J.... Bech-Hansen N.T. (2000)
    8. Loss-of-function mutations in a calcium-channel alpha 1-subunit gene in Xp11.23 cause incomplete X-linked congenital stationary night blindness. (PubMed id 9662400)1, 3, 7 Bech-Hansen N.T....Boycott K.M. (1998)
    9. Infantile and childhood retinal blindness: a molecular perspective (The Franceschetti Lecture). (PubMed id 12187427)1, 2, 7 Weleber R.G. (2002)
    10. An L-type calcium-channel gene mutated in incomplete X-linked congenital stationary night blindness. (PubMed id 9662399)1, 2, 7 Strom T.M....Meindl A. (1998)

    (in PubMed, OMIM, and NCBI Bookshelf)
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    (According to Entrez Gene, HGNC, AceView, euGenes, Ensembl, miRBase, ECgene, Kegg, and/or H-InvDB)
    About This Section
    Entrez Gene: 778 HGNC: 1393 AceView: CACNA1F Ensembl:ENSG00000102001 euGenes: HUgn778
    ECgene: CACNA1F Kegg: 778 H-InvDB: CACNA1F

    (According to HUGE)
    About This Section
      --

    (According to ATLAS, HORDE, IMGT, MTDB, LEIDEN, UniProtKB/Swiss-Prot, and/or UniProtKB/TrEMBL,
    Wikipedia and/or GeneReviews via UniProtKB/Swiss-Prot)
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    NameDescription
    Mutations of the CCNA1F genehttp://www.retina-international.com/sci-news/cacnamut.htm

    (Patent information from GeneIP,
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    IP news from XenneX, Inc.)
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    Patent Information for CACNA1F gene:
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