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Category   Symbol Source: HGNC EntrezGene Ensembl GeneCards RNA genes CroW21
GIFtS

TRIM49D1 Gene

protein-coding   GIFtS: 23
GCID: GC11M089649

Tripartite Motif Containing 49D1

(Previous names: tripartite motif containing 49D, pseudogene, tripartite...)
(Previous symbols: TRIM49DP, TRIM49D1P)
  Search for TRIM49D1
at  

(According to 1HGNC, 2Entrez Gene,
3UniProtKB/Swiss-Prot, 4UniProtKB/TrEMBL, 5OMIM, 6GeneLoc, 7Ensembl, 8DME, 9miRBase, 10fRNAdb, 12H-InvDB, 13NCBI, 14NONCODE, and/or 15RNAdb)
About This Section

Aliases
Tripartite Motif Containing 49D11 2     TRIM49D2
TRIM49D1P1 2     TRIM49L3
TRIM49DP1 2     TRIM49L13
Tripartite Motif Containing 49D, Pseudogene1 2     Tripartite Motif-Containing Protein 49-Like Protein3
Tripartite Motif Containing 49D1, Pseudogene1 2     Tripartite Motif-Containing Protein 49D2 Pseudogene3
Tripartite Motif Containing 49D1     

External Ids:    HGNC: 439731   Entrez Gene: 3999392   Ensembl: ENSG000002234177   UniProtKB: C9J1S83   

Export aliases for TRIM49D1 gene to outside databases


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

GeneCards Summary for TRIM49D1 Gene: 
TRIM49D1 (tripartite motif containing 49D1) is a protein-coding gene. An important paralog of this gene is TRIML2.


(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 73), Regulatory elements and Epigenetics data according to QIAGEN, SABiosciences, and/or SwitchGear Genomics)
About This Section
RefSeq DNA sequence:
NC_000011.9  NT_167190.1  NC_018922.2  
Regulatory elements:
   Search SABiosciences Regulatory transcription factor binding sites for TRIM49D1
         Other transcription factors

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Epigenetics:
QIAGEN PyroMark CpG Assay predesigned Pyrosequencing DNA Methylation assays in human, mouse, rat TRIM49D1


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

Entrez Gene cytogenetic band: 11q14.3   Ensembl cytogenetic band:  11q14.3   HGNC cytogenetic band: 11q14.3

TRIM49D1 Gene in genomic location: bands according to Ensembl, locations according to (and/or Entrez Gene and/or Ensembl if different)
TRIM49D1 gene location

GeneLoc information about chromosome 11         GeneLoc Exon Structure

GeneLoc location for GC11M089649:  view genomic region     (about GC identifiers)

Start:
89,644,279 bp from pter      End:
89,654,935 bp from pter
Size:
10,657 bases      Orientation:
minus strand

(According to UniProtKB, HORDE, neXtProt, Ensembl, and/or Reactome, Modification sites according to PhosphoSitePlus, Specific Peptides from DME, Protein expression images according to data from SPIRE 1MOPED, 2PaxDb, and 3MAXQB RefSeq according to NCBI, PDB rendering according to OCA and/or Proteopedia, Recombinant Proteins from EMD Millipore, R&D Systems, GenScript, Enzo Life Sciences, OriGene, Novus Biologicals, Sino Biological, ProSpec, and/or Cloud-Clone Corp.,
Biochemical Assays by EMD Millipore, R&D Systems, OriGene, GenScript, Cell Signaling Technology, Enzo Life Sciences, and/or Cloud-Clone Corp., Ontologies according to Gene Ontology Consortium 01 Oct 2013 and Entrez Gene, Antibodies by EMD Millipore, R&D Systems, GenScript, Cell Signaling Technology, OriGene, Novus Biologicals, Thermo Fisher Scientific, LSBio, Abcam, and/or Cloud-Clone Corp.)
About This Section

UniProtKB/Swiss-Prot: T49D1_HUMAN, C9J1S8 (See protein sequence)
Recommended Name: Tripartite motif-containing protein 49D1  
Size: 452 amino acids; 52496 Da
Secondary accessions: I1YAP9

Explore the universe of human proteins at neXtProt for TRIM49D1: NX_C9J1S8

TRIM49D1 Protein expression data from MOPED1, PaxDb2 and MAXQB3 : --

REFSEQ proteins: NP_001193556.1  
ENSEMBL proteins: 
 ENSP00000474850   ENSP00000474678  

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Gene Ontology (GO): 1 cellular component term (GO ID links to tree view):    About this table

GO IDQualified GO termEvidencePubMed IDs
GO:0005622intracellular ----

TRIM49D1 for ontologies           About GeneDecksing



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(According to HGNC, IUPHAR, InterPro, ProtoNet, UniProtKB, and/or BLOCKS, Sets of similar genes according to GeneDecks)
About This Section
HGNC Gene Families: 
TRIM: Tripartite motif containing / Tripartite motif containing

5/7 InterPro protein domains (see all 7):
 IPR001841 Znf_RING
 IPR001870 B30.2/SPRY
 IPR003877 SPRY_rcpt
 IPR000315 Znf_B-box
 IPR013083 Znf_RING/FYVE/PHD

Graphical View of Domain Structure for InterPro Entry C9J1S8

ProtoNet protein and cluster: C9J1S8

UniProtKB/Swiss-Prot: T49D1_HUMAN, C9J1S8
Similarity: Belongs to the TRIM/RBCC family
Similarity: Contains 1 B box-type zinc finger
Similarity: Contains 1 B30.2/SPRY domain
Similarity: Contains 1 RING-type zinc finger


TRIM49D1 for domains           About GeneDecksing


(According to 1UniProtKB, Genatlas, LifeMap Discovery™, IUBMB, and/or 2DME, Human phenotypes from GenomeRNAi, Animal models from MGI Mar 06 2013, inGenious Targeting Laboratory, genOway,
bound targets from SABiosciences, miRNA Gene Targets from miRTarBase, shRNA from OriGene, RNAi from EMD Millipore, siRNAs from OriGene, QIAGEN, microRNA from QIAGEN, Gene Editing from DNA2.0, Sirion Biotech, Clones from EMD Millipore, OriGene, SwitchGear Genomics, GenScript, Sino Biological, DNA2.0, Vector BioLabs, and Sirion Biotech, Cell Lines from GenScript, LifeMap BioReagents, In Situ Hybridization Assays from Advanced Cell Diagnostics, Ontologies according to Gene Ontology Consortium 01 Oct 2013 via Entrez Gene.)
About This Section

     Gene Ontology (GO): 3 molecular function terms (GO ID links to tree view):    About this table

GO IDQualified GO termEvidencePubMed IDs
GO:0005515protein binding ----
GO:0008270zinc ion binding ----
GO:0046872metal ion binding ----
     
TRIM49D1 for ontologies           About GeneDecksing


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(Pathways according to EMD Millipore, R&D Systems, Cell Signaling Technology, KEGG, PharmGKB, BioSystems, Sino Biological, Reactome, Tocris Bioscience, GeneGo (Thomson Reuters), QIAGEN, and/or UniProtKB, Sets of similar genes according to GeneDecks, Interaction Networks according to SABiosciences, and/or STRING, Interactions according to 1UniProtKB, 2MINT, 3I2D, and/or 4STRING, with links to IntAct and Ensembl, Ontologies according to Gene Ontology Consortium 01 Oct 2013 via Entrez Gene).
About This Section



Interactions:

    Search SABiosciences Gene Network CentralTM Interacting Genes and Proteins Networks for TRIM49D1

(Chemical Compounds according to UniProtKB, Enzo Life Sciences, EMD Millipore, Tocris Bioscience HMDB, BitterDB, and/or Novoseek, Ligands according to IUPHAR, and Drugs according to DrugBank, Enzo Life Sciences, and/or PharmGKB, with drugs/clinical trials/news search links to CenterWatch)
About This Section
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Search CenterWatch for drugs/clinical trials and news about TRIM49D1 / T49D1

(Secondary structures according to fRNAdb,
GenBank/EMBL/DDBJ Accessions according to
Unigene (Build 236 Homo sapiens; Apr 25 2013) or GenBank,
RefSeq according to Entrez Gene,
DOTS (version 10), and/or AceView, transcript ids from Ensembl with links to UCSC,
Conferences by KenesGroup, exon structure from GeneLoc, alternative splicing isoforms according to ASD and/or ECgene,
RNAi Products from EMD Millipore,
siRNAs from OriGene, QIAGEN, shRNA from OriGene, microRNA from QIAGEN,
Tagged/untagged cDNA clones from OriGene, SwitchGear Genomics, GenScript, DNA2.0, Vector BioLabs, Sirion Biotech, Primers from OriGene, SABiosciences, and/or QIAGEN )
About This Section

REFSEQ mRNAs for TRIM49D1 gene: 
NM_001206627.1  

Unigene Cluster for TRIM49D1:

Tripartite motif containing 49D1
Hs.705301
Unigene Representative Sequence: NM_001105522
2 Ensembl transcripts including schematic representations, and UCSC links where relevant:
ENST00000530311 ENST00000420869(uc009yvu.3)
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Additional mRNA sequence: 

JF968447.1 JF968448.1 

4 AceView cDNA sequences:

BX116917 AW197327 AI655261 AI950429 

GeneLoc Exon Structure


(RNA expression data according to H-InvDB, NONCODE, miRBase, and RNAdb, Expression images according to data from BioGPS, Illumina Human BodyMap, and CGAP SAGE, Sets of similar genes according to GeneDecks, in vivo and in vitro expression data from LifeMap Discovery™, plus additional links to Genevestigator, and/or SOURCE, and/or BioGPS, and/or UniProtKB,
PCR Arrays from SABiosciences, Primers from OriGene, SABiosciences, and/or QIAGEN, In Situ Hybridization Assays from Advanced Cell Diagnostics)
About This Section

TRIM49D1 expression in normal human tissues (normalized intensities)
See probesets specificity/sensitivity at GeneAnnot
About this imageBioGPS <intensity>2/3
CGAP TAG: --
TRIM49D1 Expression
About this image


SOURCE GeneReport for Unigene cluster: Hs.705301
    SABiosciences Custom PCR Arrays for TRIM49D1
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In Situ
Assay Products:
 

 
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(Orthologs according to 1,2HomoloGene (2older version, for species not in 1newer version), 3euGenes, 4SGD , 5MGI Mar 06 2013, with possible further links to Flybase and/or WormBase, and/or 6Ensembl pan taxonomic compara , Gene Trees according to Ensembl and TreeFam)
About This Section

This gene was present in the common ancestor of mammals.

Orthologs for TRIM49D1 gene from 1/3 species (see all 3)    About this table
Organism Taxonomic
classification
Gene Description Human
Similarity
Orthology
Type
Details
oppossum
(Monodelphis domestica)
Mammalia --
--
(see all 30)
Uncharacterized protein
(see all 30)
27(a)
26(a)
(see all 30)
possible ortholog
possible ortholog
(see all 30)
1(154122154-154123065)
1(534002053-534003447)


ENSEMBL Gene Tree for TRIM49D1 (if available)
TreeFam Gene Tree for TRIM49D1 (if available)

(Paralogs according to 1HomoloGene,
2Ensembl, and 3SIMAP, Pseudogenes according to 4Pseudogene.org Build 68)
About This Section
Paralogs for TRIM49D1 gene
TRIM49L1  TRIML22  TRIM432  TRIML12  TRIM772  TRIM492  TRIM64B2  TRIM49B2  
TRIM64C2  TRIM49C2  TRIM512  TRIM482  

TRIM49D1 for paralogs           About GeneDecksing



(SNPs/Variants according to the 1NCBI SNP Database, 2Ensembl, 3PupaSUITE, 4UniProtKB, and DNA2.0, Linkage Disequilibrium by HapMap, Structural Variations(CNVs/InDels/Inversions) from the Database of Genomic Variants, Mutations from the Human Gene Mutation Database (HGMD) and the Locus Specific Mutation Databases (LSDB), Blood group antigen gene mutations by BGMUT, Resequencing Primers from QIAGEN, Cancer Mutation PCR Arrays and Assays and Copy Number PCR Arrays from SABiosciences)
About This Section

4 SNPs in TRIM49D1 are shown    About this table     
Genomic DataTranscription Related DataAllele Frequencies
SNP IDValidClinical
significance
Chr 11 posSequence#AA
Chg
TypeMore#Allele
freq
PopTotal
sample
More
----------
rs2009655051,2
C--89647142(+) TTTTT-/GATTTT 1 -- int10--------
rs1999888201,2
----89652732(+) TGGAGA/GGCCCT 1 -- us2k10--------
rs2021278771,2
----89652163(+) GCAATA/CTCGGC 1 -- us2k10--------
rs2012064491,2
----89651905(+) AAGCTA/GGTTCT 1 -- us2k10--------

HapMap Linkage Disequilibrium report for TRIM49D1 (89644279 - 89654935 bp)

Structural Variations
      Database of Genomic Variants (DGV) variations for TRIM49D1: --
SABiosciences Cancer Mutation PCR Assays
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(in which this Gene is Involved, According to MalaCards, OMIM, UniProtKB, the University of Copenhagen DISEASES database, Conferences by KenesGroup, Genatlas, GeneTests, GAD, HuGE Navigator, and/or TGDB.)
About This Section
  --

(in PubMed. Associations of this gene to articles via 1Entrez Gene, 2UniProtKB/Swiss-Prot, 3HGNC, 4GAD, 5PharmGKB, 6HMDB, 7DrugBank, 8UniProtKB/TrEMBL, 9 Novoseek, and/or 10fRNAdb)
About This Section

PubMed articles for TRIM49D1 gene integrated from 9 sources:
(articles sorted by number of sources associating them with TRIM49D1)
    Utopia: connect your pdf to the dynamic
world of online information

  1. Identification of a genomic reservoir for new TRIM genes in primate genomes. (PubMed id 22144910)1, 2 Han K.... Sawyer S.L. (2011)
  2. Human chromosome 11 DNA sequence and analysis including novel gene identification. (PubMed id 16554811)2 Taylor T.D....Sakaki Y. (2006)

(in PubMed, OMIM, and NCBI Bookshelf)
About This Section
 ANDOR
Aliases
Free Text  

  Query String
PubMed
OMIM
NCBI Bookshelf
  (Note: In FireFox, select the above section and copy using Ctrl-C)

(According to Entrez Gene, HGNC, AceView, euGenes, Ensembl, miRBase, ECgene, Kegg, and/or H-InvDB)
About This Section
Entrez Gene: 399939 HGNC: 43973 AceView: LOC399939 Ensembl:ENSG00000223417 euGenes: HUgn399939
ECgene: TRIM49D1 H-InvDB: TRIM49D1

(According to HUGE)
About This Section
  --

(According to PharmGKB, ATLAS, HORDE, IMGT, LEIDEN, UniProtKB/Swiss-Prot, and/or UniProtKB/TrEMBL,
Wikipedia and/or GeneReviews via UniProtKB/Swiss-Prot)
About This Section
NameDescription
PharmGKB entry for TRIM49D1 Pharmacogenomics, SNPs, Pathways

(Patent information from GeneIP,
Licensable technologies from WIS Yeda, Salk, Tufts,
IP news from LifeMap Sciences, Inc.)
About This Section
Patent Information for TRIM49D1 gene:
Search GeneIP for patents involving TRIM49D1

GeneCards and IP:
Japan Patent Office Licenses GeneCards     European Patent Office Licenses GeneCards     Improving the IP Search



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