TRIM40 (tripartite motif containing 40) - Rat Genome Database

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Gene: TRIM40 (tripartite motif containing 40) Pan paniscus
Analyze
Symbol: TRIM40
Name: tripartite motif containing 40
RGD ID: 11743113
Description: ENCODES a protein that exhibits metal ion binding (inferred); ubiquitin protein ligase activity (inferred); zinc ion binding (inferred); INVOLVED IN negative regulation of cell growth (ortholog); ASSOCIATED WITH genetic disease (ortholog); irritant dermatitis (ortholog); megacolon (ortholog); FOUND IN IkappaB kinase complex (inferred); nuclear body (inferred)
Type: protein-coding
RefSeq Status: MODEL
Previously known as: E3 ubiquitin ligase TRIM40; tripartite motif-containing protein 40
RGD Orthologs
Human
Mouse
Rat
Chinchilla
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Genes
More Info more info ...
Latest Assembly: Mhudiblu_PPA_v0 - Bonobo Mhudiblu_PPA_v0 Assembly
Position:
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v2544,720,791 - 44,744,925 (+)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan1640,683,795 - 40,704,421 (+)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v0629,912,857 - 29,926,550 (+)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.1630,583,968 - 30,596,583 (+)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl630,584,272 - 30,599,635 (+)Ensemblpanpan1.1panPan2
JBrowse: View Region in Genome Browser (JBrowse)
Model


Disease Annotations     Click to see Annotation Detail View

Gene Ontology Annotations     Click to see Annotation Detail View

Cellular Component

Molecular Function

References
Additional References at PubMed
PMID:22301074   PMID:30032202  


Genomics

Comparative Map Data
TRIM40
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v2544,720,791 - 44,744,925 (+)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan1640,683,795 - 40,704,421 (+)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v0629,912,857 - 29,926,550 (+)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.1630,583,968 - 30,596,583 (+)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl630,584,272 - 30,599,635 (+)Ensemblpanpan1.1panPan2
TRIM40
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38630,136,140 - 30,148,735 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl630,136,124 - 30,148,735 (+)EnsemblGRCh38hg38GRCh38
GRCh37630,103,917 - 30,116,512 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 36630,212,489 - 30,224,488 (+)NCBINCBI36Build 36hg18NCBI36
Build 34630,212,488 - 30,223,570NCBI
Celera631,702,776 - 31,714,781 (+)NCBICelera
Cytogenetic Map6p22.1NCBI
HuRef629,902,691 - 29,914,687 (+)NCBIHuRef
CHM1_1630,106,586 - 30,118,587 (+)NCBICHM1_1
T2T-CHM13v2.0630,000,415 - 30,013,010 (+)NCBIT2T-CHM13v2.0
Trim40
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391737,192,488 - 37,201,049 (-)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl1737,192,490 - 37,201,015 (-)EnsemblGRCm39 Ensembl
GRCm381736,881,596 - 36,890,157 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1736,881,598 - 36,890,123 (-)EnsemblGRCm38mm10GRCm38
MGSCv371737,018,543 - 37,027,070 (-)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv361736,489,651 - 36,498,098 (-)NCBIMGSCv36mm8
Celera1740,300,820 - 40,309,325 (-)NCBICelera
Cytogenetic Map17B1NCBI
cM Map1719.16NCBI
Trim40
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr8201,680,554 - 1,691,123 (+)NCBIGRCr8
mRatBN7.2201,676,114 - 1,685,906 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl201,676,270 - 1,685,214 (+)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx201,729,830 - 1,738,396 (+)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0201,733,332 - 1,741,894 (+)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0201,673,911 - 1,682,490 (+)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.0202,169,674 - 2,178,477 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl202,169,545 - 2,178,601 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.0204,205,817 - 4,216,051 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4201,768,482 - 1,777,393 (+)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.1201,768,481 - 1,777,393 (+)NCBI
Celera202,385,041 - 2,394,038 (+)NCBICelera
Cytogenetic Map20p12NCBI
Trim40
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_004955583242,054 - 259,008 (+)EnsemblChiLan1.0
ChiLan1.0NW_004955583242,054 - 260,565 (+)NCBIChiLan1.0ChiLan1.0
Trim40
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440494632,681,400 - 32,696,823 (+)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_004936723896,054 - 909,263 (-)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_004936723897,213 - 909,263 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
TRIM40
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl722,702,938 - 22,717,545 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.1722,702,891 - 22,717,850 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.2724,860,690 - 24,873,040 (-)NCBISscrofa10.2Sscrofa10.2susScr3
TRIM40
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.11742,358,748 - 42,370,400 (-)NCBIChlSab1.1ChlSab1.1chlSab2
Vero_WHO_p1.0NW_02366604429,786,939 - 29,798,392 (+)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Trim40
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla 1.0NW_00462475425,278,747 - 25,285,378 (-)NCBIHetGla_female_1.0HetGla 1.0hetGla2


Expression


Sequence


Reference Sequences
RefSeq Acc Id: ENSPPAT00000041731   ⟹   ENSPPAP00000018983
Type: CODING
Position:
Bonobo AssemblyChrPosition (strand)Source
PanPan1.1 Ensembl630,584,272 - 30,599,635 (+)Ensembl
RefSeq Acc Id: ENSPPAT00000041733   ⟹   ENSPPAP00000018985
Type: CODING
Position:
Bonobo AssemblyChrPosition (strand)Source
PanPan1.1 Ensembl630,584,272 - 30,599,635 (+)Ensembl
RefSeq Acc Id: ENSPPAT00000041739   ⟹   ENSPPAP00000018991
Type: CODING
Position:
Bonobo AssemblyChrPosition (strand)Source
PanPan1.1 Ensembl630,584,897 - 30,595,664 (+)Ensembl
RefSeq Acc Id: XM_055113329   ⟹   XP_054969304
Type: CODING
Position:
Bonobo AssemblyChrPosition (strand)Source
NHGRI_mPanPan1-v2544,721,079 - 44,744,925 (+)NCBI
NHGRI_mPanPan1640,684,082 - 40,704,421 (+)NCBI
RefSeq Acc Id: XM_055113330   ⟹   XP_054969305
Type: CODING
Position:
Bonobo AssemblyChrPosition (strand)Source
NHGRI_mPanPan1-v2544,727,943 - 44,744,925 (+)NCBI
NHGRI_mPanPan1640,690,938 - 40,704,421 (+)NCBI
RefSeq Acc Id: XM_055113331   ⟹   XP_054969306
Type: CODING
Position:
Bonobo AssemblyChrPosition (strand)Source
NHGRI_mPanPan1-v2544,720,791 - 44,744,925 (+)NCBI
NHGRI_mPanPan1640,683,795 - 40,704,421 (+)NCBI
Protein Sequences
Protein RefSeqs XP_054969304 (Get FASTA)   NCBI Sequence Viewer  
  XP_054969305 (Get FASTA)   NCBI Sequence Viewer  
  XP_054969306 (Get FASTA)   NCBI Sequence Viewer  
Ensembl Protein ENSPPAP00000018983.1
  ENSPPAP00000018985.1
  ENSPPAP00000018991.1
Reference Protein Sequences
RefSeq Acc Id: ENSPPAP00000018983   ⟸   ENSPPAT00000041731
RefSeq Acc Id: ENSPPAP00000018985   ⟸   ENSPPAT00000041733
RefSeq Acc Id: ENSPPAP00000018991   ⟸   ENSPPAT00000041739
RefSeq Acc Id: XP_054969306   ⟸   XM_055113331
RefSeq Acc Id: XP_054969304   ⟸   XM_055113329
RefSeq Acc Id: XP_054969305   ⟸   XM_055113330
Protein Domains
B box-type   RING-type


Additional Information

Database Acc Id Source(s)
Ensembl Genes ENSPPAG00000032657 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSPPAT00000041731.1 UniProtKB/TrEMBL
  ENSPPAT00000041733.1 UniProtKB/TrEMBL
  ENSPPAT00000041739.1 UniProtKB/TrEMBL
Gene3D-CATH 3.30.40.10 UniProtKB/TrEMBL
  Classic Zinc Finger UniProtKB/TrEMBL
InterPro Znf_B-box UniProtKB/TrEMBL
  Znf_C3HC4_RING-type UniProtKB/TrEMBL
  Znf_RING UniProtKB/TrEMBL
  Znf_RING/FYVE/PHD UniProtKB/TrEMBL
  Znf_RING_CS UniProtKB/TrEMBL
NCBI Gene TRIM40 ENTREZGENE
PANTHER E3 UBIQUITIN LIGASE TRIM40 UniProtKB/TrEMBL
  E3 UBIQUITIN-PROTEIN LIGASE TRIM UniProtKB/TrEMBL
Pfam zf-C3HC4 UniProtKB/TrEMBL
PROSITE ZF_BBOX UniProtKB/TrEMBL
  ZF_RING_1 UniProtKB/TrEMBL
  ZF_RING_2 UniProtKB/TrEMBL
SMART RING UniProtKB/TrEMBL
Superfamily-SCOP B-box zinc-binding domain UniProtKB/TrEMBL
  RING/U-box UniProtKB/TrEMBL
UniProt A0A2R9ANQ9_PANPA UniProtKB/TrEMBL
  A0A2R9AP99_PANPA UniProtKB/TrEMBL
  A0A2R9AT84_PANPA UniProtKB/TrEMBL