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Aliases & Descriptionsfor TIMD4 gene
(According to
1 HGNC ,
2 Entrez Gene ,
3 UniProtKB/Swiss-Prot ,
4 UniProtKB/TrEMBL , 5 OMIM , 6 GeneLoc
, and/or 7 Ensembl ,
8 miRBase )About This Section Aliases & Descriptions T-cell immunoglobulin and mucin domain containing 41 2 T-cell membrane protein 42 3 TIM-42 3 FLJ275152 TIM42 3 T-cell immunoglobulin and mucin domain-containing protein 42 TIMD-42 3 SMUCKLER2
Export aliases for TIMD4 gene to outside databases Previous GC identifer: GC05M156278
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Summariesfor TIMD4 gene (According to Entrez Gene ,
Tocris Bioscience ,
Wikipedia's
Gene Wiki ,
UniProtKB/Swiss-Prot ,
and/or
UniProtKB/TrEMBL )
About This Section UniProtKB/Swiss-Prot: TIMD4_HUMAN, Q96H15 Function : Phosphatidylserine receptor that enhances the engulfment of apoptotic cells. Involved in regulating T-cellproliferation and lymphotoxin signaling. Ligand for HAVCR1/TIMD1 (By similarity)
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Genomic Viewsfor TIMD4 gene
(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 TIMD4 gene promoter: Nkx2-2 GATA-1 NF-kappaB NF-kappaB1 ISGF-3 XBP-1 AP-1 PPAR-gamma1 PPAR-gamma2 HNF-4alpha2 Other transcription factors Search SABiosciences Chromatin IP Primers for TIMD4 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: 5q33.3 Ensembl cytogenetic band: 5q33.3 HGNC cytogenetic band: 5q33.3 TIMD4 Gene in genomic location: bands according to Ensembl, locations according to
(and/or Entrez Gene and/or Ensembl if different) GeneLoc gene densities for chromosome 5 GeneLoc Exon Structure
GeneLoc location for GC05M151439: view genomic region
(about GC identifiers )
Start:
151,439,934 bp from pter
End:
151,483,898 bp from pter
Size:
43,965 bases
Orientation:
minus strand
1 alternative location : Chr 5- 156,346,293-156,390,266
RefSeq DNA sequence: NC_000005.9 NT_023133.13
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Proteinsfor TIMD4 gene
(According to
1 UniProtKB ,
neXtProt ,
and/or Ensembl ,
Phosphorylation sites according to 2 Phosphosite ,
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: TIMD4_HUMAN, Q96H15 (See
protein sequence )Recommended Name: T-cell immunoglobulin and mucin domain-containing protein 4 precursor Size : 378 amino acids; 41578 Da
Subcellular location : Membrane; Single-pass type I membrane protein (Potential)Explore the universe of human proteins at neXtProt for TIMD4: NX_Q96H15
REFSEQ proteins (2 alternative transcripts):
NP_001140198.1 NP_612388.2 ENSEMBL proteins: ENSP00000385973 ENSP00000385882 ENSP00000274532 Human Recombinant Proteins 2 Gene Ontology (GO) cellular component terms (GO ID links to tree view) :
GO ID Qualified GO term Evidence PubMed IDs GO:0016020 membrane
IEA -- GO:0016021 integral to membrane
IEA --
About this table
TIMD4 for ontologies About GeneDecksing Antibodies for TIMD4: Assays for TIMD4:
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Protein
Domains/ Familiesfor TIMD4 gene (According to InterPro , ProtoNet ,
UniProtKB , and/or BLOCKS ,
Sets of similar genes according to GeneDecks )
About This Section
TIMD4 for domains About GeneDecksing 4 InterPro domains/families :
Graphical View of Domain Structure for InterPro Entry Q96H15 ProtoNet protein and cluster: Q96H15
1 Blocks protein family : IPB003599 Immunoglobulin subtype UniProtKB/Swiss-Prot: TIMD4_HUMAN, Q96H15 Domain : Recognizes phosphatidyl serine via its immunoglobulin domainSimilarity : Belongs to the immunoglobulin superfamily. TIM familySimilarity : Contains 1 Ig-like V-type (immunoglobulin-like) domain
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Gene Functionfor TIMD4 gene
(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: TIMD4_HUMAN, Q96H15 Function : Phosphatidylserine receptor that enhances the engulfment of apoptotic cells. Involved in regulating T-cellproliferation and lymphotoxin signaling. Ligand for HAVCR1/TIMD1 (By similarity)
1 Gene Ontology (GO) molecular function term (GO ID links to tree view) :
GO ID Qualified GO term Evidence PubMed IDs GO:0005515 protein binding
IEA --
About this table
TIMD4 for ontologies About GeneDecksing Animal Models: 2 MGI mutant phenotypes (inferred from 2 alleles ) (MGI details for Timd4) :
TIMD4 for phenotypes About GeneDecksing
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Pathways & Interactionsfor TIMD4 gene
(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 1 UniProtKB ,
2 MINT , and/or
3 STRING ,
with links to IntAct and
Ensembl ,
Ontologies according to Gene Ontology Consortium 01 Dec 2010 via
Entrez Gene) .
About This Section SABiosciences Custom Pathway-Focused PCR Arrays for TIMD4 Search SABiosciences Gene Network CentralTM Interacting Genes and Proteins Networks for TIMD4
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Drugs & Compoundsfor TIMD4 gene (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 Browse Tocris compounds for TIMD4
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Transcriptsfor TIMD4 gene (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 REFSEQ mRNAs for TIMD4 gene (2 alternative transcripts): NM_001146726.1 NM_138379.2
Additional cDNA sequence: AK131025.1 AK301337.1 AK312746.1 BC008988.1 CR603034.1
2 DOTS entries : DT.97783175 DT.92066900
24/29 AceView cDNA sequences (see all 29 ):
BX439191 AI218853 BE550640 BE552351 BP371340 NM_138379 AA861640 AA400536 AW516351 CR603034 BC008988 AK131025 BX448841 AW274868 BQ182903 AI476417 BX281207 BF338867 AI149724 AI862534 AA936598 AW292593 AA843555 BU958106
highest scoring ESTs for TIMD4 :BC008988 BF338867 AI862534 BQ182903 BX448841 CR603034 H53024 NM_138379 AA400490 AA400536 Unigene Cluster for TIMD4:
T-cell immunoglobulin and mucin domain containing 4 Hs.334907 [show with all ESTs ] Unigene Representative Sequence: BM559521 GeneLoc Exon Structure 3 Alternative Splicing Database (ASD) splice patterns (SP) for TIMD4 ExUns: 1 ^ 2 ^ 3 ^ 4 ^ 5 ^ 6 ^ 7 ^ 8a · 8b · 8c ^ 9 ^ 10 SP1 :           -         -       SP2 :                   -       SP3 :                        
About this scheme ECgene alternative splicing isoforms for TIMD4 3 Ensembl transcripts including schematic representations, and UCSC links where relevant : ENST00000407087 ENST00000406964 (uc003lwg.2 ) ENST00000274532 (uc003lwh.2 uc010jii.2 )
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Expression for TIMD4 gene
(Experimental results according to
1 GeneNote
and GNF BioGPS ,
probe sets-to-genes annotations according to
2 GeneAnnot ,
3 GeneTide ,
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 TIMD4 expression in normal and diseased human tissues 1 / 2
1 probe-set matching TIMD4 gene
Affymetrix probe-set
Array
GeneAnnot data
GeneNote data
GeneTide data
# genes
Sensitivity
Specificity
Correlation
Length
Gb_Accession
Consensus
Uniqueness
Score
Rank
1552280_at2
U133Plus2
1
0.64
1.00
--
--
--
--
--
--
--
About this table Data from
Genenote  
(Publications) and GNF BioGPS About these images About these images CGAP SAGE TAG: ACACTCCAGT SOURCE GeneReport for Unigene cluster: Hs.334907 SABiosciences Custom PCR Arrays for TIMD4
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Orthologsfor TIMD4 gene
(Orthologs according to
1,2 HomoloGene (2 older version, for species not in 1 newer version),
3 euGenes ,
4 SGD
and/or
5 MGI Dec 24 2010,
with possible further links to
Flybase
and/or
WormBase ,
Gene Trees according to Ensembl )
About This Section
Orthologs for TIMD4 gene from 5 species
About this table Species with no ortholog for TIMD4 ENSEMBL Gene Tree for TIMD4 (if available)
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Paralogsfor TIMD4 gene (Paralogs according to 1 HomoloGene and 2 Ensembl , Pseudogenes according to 3 Pseudogene.org )About This Section Paralogs for TIMD4 gene HAVCR2 2 HAVCR1 2
TIMD4 for paralogs About GeneDecksing
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Genomic Variantsfor TIMD4 gene (SNPs according to the
1 NCBI SNP Database ,
2 Ensembl ,
3 PupaSUITE , and
UniProtKB ,
Linkage Disequilibrium by HapMap ,
Structural Variations(CNVs/InDels/Inversions) from the Database of Genomic Variants , Resequencing Primers from Qiagen )
About This Section
Genomic Data Transcription Related Data Allele Frequencies SNP ID Valid Chr 5 pos Sequence Recs AA Chg Type More Recs Allele freq Pop Total sample More
About this table HapMap Linkage Disequilibrium images for TIMD4 (up to first 250kb)
Structural Variations (Copy Number Variations, Insertions/Deletions, Inversions) Database of Genomic Variants (DGV) variations for TIMD4: --
QIAGEN SeqTarget long-range PCR primers for resequencing TIMD4
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Disorders & Mutationsfor TIMD4 gene
(in which this Gene is Involved, According to
OMIM, UniProtKB ,
PharmGKB ,
Genatlas , GeneTests ,
Blood group antigen gene mutations by BGMUT ,
LSDB, HGMD, GAD ,
HuGE Navigator ,
and/or TGDB .)
About This Section
TIMD4 for disorders About GeneDecksing
OMIM: 610096 Human Genome Epidemiology (HuGE) Navigator: TIMD4 (7 documents) Export disorders and mutations for TIMD4 gene to outside databases
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Medical Newsfor TIMD4 gene (Possibly Related Articles in
Doctor's Guide )
About This Section --
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Publicationsfor TIMD4 gene (in
PubMed .
Associations of this gene to articles via
1 Entrez Gene ,
2 UniProtKB/Swiss-Prot ,
3 HGNC ,
4 GAD ,
5 PharmGKB ,
6 UniProtKB/TrEMBL , and/or
7 Novoseek )
About This Section 10/18 PubMed articles for TIMD4 gene, integrated from 7 sources (see all 18 ): (articles sorted by number of sources associating them with TIMD4) The status, quality, and expansion of the NIH full-length cDNA project: the Mammalian Gene Collection (MGC). (PubMed id 15489334) 1 , 2 Gerhard D.S....Malek J. (2004) Generation and initial analysis of more than 15,000 full-length human and mouse cDNA sequences. (PubMed id 12477932) 1 , 3 Strausberg R.L....Marra M.A. (2002) Increased expression of human T-cell immunoglobulin- and mucin-domain-containing molecule-4 in peripheral blood mononuclear cells fr om patients with system lupus erythematosus. (PubMed id 20140011) 1 , 7 Zhao P....Gao L. (2010) Significant association between TIM1 promoter polymorphisms and protection against cerebral malaria in Thailand. (PubMed id 18294362) 1 , 7 Nuchnoi P....Patarapotikul J. (2008) Genetic loci associated with lipid concentrations and cardiovascular risk factors in the Korean population. (PubMed id 20972250) 1 Park M.H....Park H.Y. (2011) New genetic associations detected in a host response study to hepatitis B vaccine. (PubMed id 20237496) 1 Davila S....Seielstad M. (2010) The phosphatidylserine receptors, T cell immunoglobul in mucin proteins 3 and 4, are markers of histiocytic sarcoma and other histioc ytic and dendritic cell neoplasms. (PubMed id 20656318) 1 Dorfman D.M....Freeman G.J. (2010) Common variants at 30 loci contribute to polygenic dyslipidemia. (PubMed id 19060906) 1 Kathiresan S....Cupples L.A. (2009) Association of TIM4 promoter polymorphism -1419G>A with childhood asthma in a Chinese Han population. (PubMed id 19392790) 1 Cai P.C....Wu Q.W. (2009) The phosphatidylserine receptor TIM-4 does not mediate direct signaling. (PubMed id 19217291) 1 Park D....Ravichandran K.S. (2009)
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External Searches for TIMD4 gene
(in PubMed ,
OMIM , and NCBI Bookshelf ) About This Section
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Genome Databases showing TIMD4 gene
(According to
Entrez Gene ,
HGNC ,
AceView ,
euGenes ,
Ensembl ,
miRBase ,
ECgene ,
Kegg ,
and/or
H-InvDB )
About This Section
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Other Databases showing TIMD4 gene
(According to HUGE )
About This Section --
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Specialized Databases showing TIMD4 gene (According to ATLAS , HORDE , IMGT , MTDB, LEIDEN , UniProtKB/Swiss-Prot , and/or UniProtKB/TrEMBL ,Wikipedia and/or GeneReviews via UniProtKB/Swiss-Prot )About This Section
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About This Section Patent Information for TIMD4 gene: Search GeneIP for patents involving TIMD4 GeneCards and IP: Japan Patent Office Licenses GeneCards European Patent Office Licenses GeneCards Improving the IP Search
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Productsfor TIMD4 gene (Antibodies, recombinant proteins, and assays by Millipore , Sigma-Aldrich , R&D Systems , Qiagen , GenScript , Cell Signaling Technology , SABiosciences , Novus Biologicals , Epitomics , ProSpec , Uscn , Clones available from Millipore , Sigma-Aldrich , OriGene , GenScript , Sino Biological , PCR Arrays from SABiosciences , Drugs and/or compounds by Sigma-Aldrich , Tocris Bioscience , and/or
Enzo Life Sciences )About This Section
Search Tocris compounds for TIMD4
ELISAs and CLIAs for TIMD4
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