Trim56 (tripartite motif containing 56) - Rat Genome Database

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Gene: Trim56 (tripartite motif containing 56) Heterocephalus glaber
Analyze
Symbol: Trim56
Name: tripartite motif containing 56
RGD ID: 18931289
Description: ENCODES a protein that exhibits metal ion binding (inferred); ubiquitin protein ligase activity (inferred); zinc ion binding (inferred); INVOLVED IN defense response to virus (ortholog); innate immune response (ortholog); negative regulation of viral entry into host cell (ortholog); ASSOCIATED WITH genetic disease (ortholog); Plasminogen Activator Inhibitor-1 Deficiency (ortholog); pleomorphic xanthoastrocytoma (ortholog); FOUND IN cytoplasm (inferred)
Type: protein-coding
RefSeq Status: MODEL
Previously known as: E3 ubiquitin-protein ligase TRIM56; Tripartite motif-containing protein 56
RGD Orthologs
Human
Mouse
Rat
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Alliance Genes
More Info more info ...
Latest Assembly: HetGla 1.0 - Naked Mole-Rat female 1.0 Assembly
Position:
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_00462474016,159,874 - 16,162,090 (-)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_00462474016,154,441 - 16,163,057 (-)NCBIHetGla_female_1.0HetGla 1.0hetGla2
JBrowse: View Region in Genome Browser (JBrowse)
Model


References
Additional References at PubMed
PMID:21993625   PMID:22301074   PMID:30032202  


Genomics

Comparative Map Data
Trim56
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_00462474016,159,874 - 16,162,090 (-)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_00462474016,154,441 - 16,163,057 (-)NCBIHetGla_female_1.0HetGla 1.0hetGla2
TRIM56
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh387101,085,481 - 101,097,967 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl7101,085,481 - 101,097,967 (+)EnsemblGRCh38hg38GRCh38
GRCh377100,728,762 - 100,741,248 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 367100,515,506 - 100,520,629 (+)NCBINCBI36Build 36hg18NCBI36
Build 347100,322,220 - 100,327,322NCBI
Celera795,736,929 - 95,742,103 (+)NCBICelera
Cytogenetic Map7q22.1NCBI
HuRef795,322,038 - 95,327,161 (+)NCBIHuRef
CHM1_17100,659,113 - 100,664,213 (+)NCBICHM1_1
T2T-CHM13v2.07102,408,287 - 102,420,773 (+)NCBIT2T-CHM13v2.0
CRA_TCAGchr7v27100,087,175 - 100,092,298 (+)NCBI
Trim56
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm395137,140,140 - 137,145,313 (-)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl5137,134,498 - 137,145,063 (-)EnsemblGRCm39 Ensembl
GRCm385137,111,286 - 137,116,462 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl5137,105,644 - 137,116,209 (-)EnsemblGRCm38mm10GRCm38
MGSCv375137,587,156 - 137,592,077 (-)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv365137,395,913 - 137,400,834 (-)NCBIMGSCv36mm8
Celera5134,128,782 - 134,133,656 (-)NCBICelera
Cytogenetic Map5G2NCBI
cM Map576.19NCBI
Trim56
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr81225,193,224 - 25,204,032 (+)NCBIGRCr8
mRatBN7.21219,544,913 - 19,567,324 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1219,551,521 - 19,567,462 (+)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx1220,695,074 - 20,699,082 (+)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.01221,307,774 - 21,311,788 (+)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.01220,372,315 - 20,376,323 (+)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Cytogenetic Map12q12NCBI
Trim56
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_00495545616,182,453 - 16,184,669 (-)EnsemblChiLan1.0
ChiLan1.0NW_00495545616,181,890 - 16,185,598 (-)NCBIChiLan1.0ChiLan1.0
TRIM56
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v26119,097,699 - 119,103,100 (+)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan17167,362,359 - 167,370,424 (+)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v0793,225,830 - 93,231,127 (+)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.17106,467,469 - 106,473,566 (+)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl7106,469,474 - 106,471,741 (+)Ensemblpanpan1.1panPan2
TRIM56
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.168,744,970 - 8,752,896 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl68,749,438 - 8,751,753 (-)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha610,442,309 - 10,450,432 (-)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.068,564,002 - 8,572,131 (-)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl68,566,839 - 8,571,863 (-)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.168,524,312 - 8,532,432 (-)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.068,494,757 - 8,502,884 (-)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.068,659,509 - 8,667,631 (-)NCBIUU_Cfam_GSD_1.0
Trim56
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_024409344133,024,856 - 133,029,353 (-)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_0049365431,009,387 - 1,011,654 (+)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_0049365431,007,253 - 1,016,374 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
TRIM56
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl38,834,274 - 8,839,415 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.138,834,260 - 8,842,524 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
TRIM56
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.12812,093,927 - 12,099,490 (-)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl2812,095,421 - 12,097,688 (-)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_0236660704,255,604 - 4,260,896 (+)NCBIVero_WHO_p1.0Vero_WHO_p1.0


Expression


Sequence


Reference Sequences
RefSeq Acc Id: ENSHGLT00000027157   ⟹   ENSHGLP00000026918
Type: CODING
Position:
Naked Mole-Rat AssemblyChrPosition (strand)Source
HetGla_female_1.0 EnsemblNW_00462474016,159,874 - 16,162,090 (-)Ensembl
RefSeq Acc Id: XM_004840154   ⟹   XP_004840211
Type: CODING
Position:
Naked Mole-Rat AssemblyChrPosition (strand)Source
HetGla 1.0NW_00462474016,154,441 - 16,163,057 (-)NCBI
RefSeq Acc Id: XM_021254476   ⟹   XP_021110135
Type: CODING
Position:
Naked Mole-Rat AssemblyChrPosition (strand)Source
HetGla 1.0NW_00462474016,154,441 - 16,163,057 (-)NCBI
RefSeq Acc Id: XM_021254477   ⟹   XP_021110136
Type: CODING
Position:
Naked Mole-Rat AssemblyChrPosition (strand)Source
HetGla 1.0NW_00462474016,154,441 - 16,163,057 (-)NCBI
Protein Sequences
Protein RefSeqs XP_004840211 (Get FASTA)   NCBI Sequence Viewer  
  XP_021110135 (Get FASTA)   NCBI Sequence Viewer  
  XP_021110136 (Get FASTA)   NCBI Sequence Viewer  
GenBank Protein EHB01687 (Get FASTA)   NCBI Sequence Viewer  
Ensembl Protein ENSHGLP00100030626
  ENSHGLP00100045774
Reference Protein Sequences
RefSeq Acc Id: XP_004840211   ⟸   XM_004840154
- UniProtKB: G5AXC5 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_021110136   ⟸   XM_021254477
- UniProtKB: G5AXC5 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_021110135   ⟸   XM_021254476
- UniProtKB: G5AXC5 (UniProtKB/TrEMBL)
RefSeq Acc Id: ENSHGLP00000026918   ⟸   ENSHGLT00000027157


Additional Information

Database Acc Id Source(s)
Ensembl Genes ENSHGLG00000019143 Ensembl
  ENSHGLG00100050595 UniProtKB/TrEMBL
Ensembl Transcript ENSHGLT00100057902 UniProtKB/TrEMBL
  ENSHGLT00100070514 UniProtKB/TrEMBL
Gene3D-CATH 2.120.10.30 UniProtKB/TrEMBL
  3.30.40.10 UniProtKB/TrEMBL
  Classic Zinc Finger UniProtKB/TrEMBL
InterPro 6-blade_b-propeller_TolB-like UniProtKB/TrEMBL
  TRIM45/56/19 UniProtKB/TrEMBL
  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
KEGG Report hgl:101704278 UniProtKB/TrEMBL
NCBI Gene Trim56 ENTREZGENE
PANTHER BONUS, ISOFORM C-RELATED UniProtKB/TrEMBL
  E3 UBIQUITIN-PROTEIN LIGASE TRIM56 UniProtKB/TrEMBL
Pfam zf-B_box UniProtKB/TrEMBL
  zf-C3HC4 UniProtKB/TrEMBL
PROSITE ZF_BBOX UniProtKB/TrEMBL
  ZF_RING_1 UniProtKB/TrEMBL
  ZF_RING_2 UniProtKB/TrEMBL
SMART BBOX UniProtKB/TrEMBL
  RING UniProtKB/TrEMBL
Superfamily-SCOP 3-carboxy-cis,cis-mucoante lactonizing enzyme UniProtKB/TrEMBL
  B-box zinc-binding domain UniProtKB/TrEMBL
  RING/U-box UniProtKB/TrEMBL
UniProt G5AXC5 ENTREZGENE, UniProtKB/TrEMBL