TRIM56 (tripartite motif containing 56) - Rat Genome Database

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Gene: TRIM56 (tripartite motif containing 56) Canis lupus familiaris
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Symbol: TRIM56
Name: tripartite motif containing 56
RGD ID: 12142815
Description: ENCODES a protein that exhibits ubiquitin protein ligase activity (ortholog); INVOLVED IN defense response to virus (ortholog); innate immune response (ortholog); negative regulation of viral entry into host cell (ortholog); ASSOCIATED WITH Plasminogen Activator Inhibitor-1 Deficiency (ortholog); pleomorphic xanthoastrocytoma (ortholog); FOUND IN cytoplasm (inferred)
Type: protein-coding
RefSeq Status: MODEL
Also known as: E3 ubiquitin-protein ligase TRIM56; tripartite motif-containing protein 56
RGD Orthologs
Human
Mouse
Rat
Chinchilla
Bonobo
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Genes
More Info more info ...
Latest Assembly: CanFam3.1 - Dog CanFam3.1 Assembly
Position:
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 (-)NCBI
ROS_Cfam_1.068,564,002 - 8,572,131 (-)NCBI
UMICH_Zoey_3.168,524,312 - 8,532,432 (-)NCBI
UNSW_CanFamBas_1.068,494,757 - 8,502,884 (-)NCBI
UU_Cfam_GSD_1.068,659,509 - 8,667,631 (-)NCBI
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
cytoplasm  (IEA)

Molecular Function

References

Genomics

Comparative Map Data
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 (-)NCBI
ROS_Cfam_1.068,564,002 - 8,572,131 (-)NCBI
UMICH_Zoey_3.168,524,312 - 8,532,432 (-)NCBI
UNSW_CanFamBas_1.068,494,757 - 8,502,884 (-)NCBI
UU_Cfam_GSD_1.068,659,509 - 8,667,631 (-)NCBI
TRIM56
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38.p13 Ensembl7101,085,481 - 101,097,967 (+)EnsemblGRCh38hg38GRCh38
GRCh387101,085,424 - 101,097,967 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh377100,728,762 - 100,741,248 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 367100,515,506 - 100,520,629 (+)NCBINCBI36hg18NCBI36
Build 347100,322,220 - 100,327,322NCBI
Celera795,736,929 - 95,742,103 (+)NCBI
Cytogenetic Map7q22.1NCBI
HuRef795,322,038 - 95,327,161 (+)NCBIHuRef
CHM1_17100,659,047 - 100,665,344 (+)NCBICHM1_1
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 (-)NCBIGRCm39mm39
GRCm39 Ensembl5137,134,498 - 137,145,063 (-)Ensembl
GRCm385137,111,286 - 137,116,462 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl5137,105,644 - 137,116,209 (-)EnsemblGRCm38mm10GRCm38
MGSCv375137,587,156 - 137,592,077 (-)NCBIGRCm37mm9NCBIm37
MGSCv365137,395,913 - 137,400,834 (-)NCBImm8
Celera5134,128,782 - 134,133,656 (-)NCBICelera
Cytogenetic Map5G2NCBI
Trim56
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.21219,544,913 - 19,567,324 (+)NCBI
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
PanPan1.17106,467,469 - 106,473,566 (+)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl7106,469,474 - 106,471,741 (+)Ensemblpanpan1.1panPan2
Mhudiblu_PPA_v0793,225,830 - 93,231,127 (+)NCBIMhudiblu_PPA_v0panPan3
Trim56
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_024409344133,024,856 - 133,029,353 (-)NCBI
SpeTri2.0NW_0049365431,007,253 - 1,016,374 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
TRIM56
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl38,834,143 - 8,839,415 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.138,834,260 - 8,842,524 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
TRIM56
(Chlorocebus sabaeus - African green monkey)
Vervet AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.12812,093,927 - 12,099,490 (-)NCBI
ChlSab1.1 Ensembl2812,095,421 - 12,097,688 (-)Ensembl
Vero_WHO_p1.0NW_0236660704,255,604 - 4,260,896 (+)NCBI
Trim56
(Heterocephalus glaber - naked mole-rat)
Molerat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla 1.0NW_00462474016,154,441 - 16,163,057 (-)NCBI


Expression


RNA-SEQ Expression
High: > 1000 TPM value   Medium: Between 11 and 1000 TPM
Low: Between 0.5 and 10 TPM   Below Cutoff: < 0.5 TPM

alimentary part of gastrointestinal system circulatory system endocrine system exocrine system hemolymphoid system hepatobiliary system integumental system musculoskeletal system nervous system reproductive system respiratory system adipose tissue
High
Medium 5 1 10 2
Low 5 5 17 6 5 6 6 6 12 4
Below cutoff 8

Sequence

Nucleotide Sequences
RefSeq Transcripts XM_005621006 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_005621007 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_038477953 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_038477954 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_038477955 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_038477956 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_038538051 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_038538068 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_038539214 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_038539215 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_038539216 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_038539217 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_038603292 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_038603293 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_038603294 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_038603295 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_038667997 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_038667998 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_038667999 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_038668000 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
GenBank Nucleotide AAEX04000006 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  JAAHUQ010000067 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  JAAQRD010000090 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  JAAUVH010000065 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  REHQ01000006 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles

Reference Sequences
RefSeq Acc Id: ENSCAFT00000022073   ⟹   ENSCAFP00000063067
RefSeq Status:
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
CanFam3.1 Ensembl68,749,438 - 8,751,753 (-)Ensembl
RefSeq Acc Id: XM_005621006   ⟹   XP_005621063
RefSeq Status:
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
CanFam3.168,744,970 - 8,752,896 (-)NCBI
Dog10K_Boxer_Tasha610,442,309 - 10,450,259 (-)NCBI
Sequence:
RefSeq Acc Id: XM_005621007   ⟹   XP_005621064
RefSeq Status:
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
CanFam3.168,744,970 - 8,752,886 (-)NCBI
Dog10K_Boxer_Tasha610,442,309 - 10,450,432 (-)NCBI
Sequence:
RefSeq Acc Id: XM_038477953   ⟹   XP_038333881
RefSeq Status:
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
UMICH_Zoey_3.168,524,312 - 8,532,432 (-)NCBI
RefSeq Acc Id: XM_038477954   ⟹   XP_038333882
RefSeq Status:
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
UMICH_Zoey_3.168,524,312 - 8,532,291 (-)NCBI
RefSeq Acc Id: XM_038477955   ⟹   XP_038333883
RefSeq Status:
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
UMICH_Zoey_3.168,524,312 - 8,532,259 (-)NCBI
RefSeq Acc Id: XM_038477956   ⟹   XP_038333884
RefSeq Status:
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
UMICH_Zoey_3.168,524,312 - 8,532,432 (-)NCBI
RefSeq Acc Id: XM_038538051   ⟹   XP_038393979
RefSeq Status:
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
Dog10K_Boxer_Tasha610,442,309 - 10,450,291 (-)NCBI
RefSeq Acc Id: XM_038538068   ⟹   XP_038393996
RefSeq Status:
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
Dog10K_Boxer_Tasha610,442,309 - 10,450,432 (-)NCBI
RefSeq Acc Id: XM_038539214   ⟹   XP_038395142
RefSeq Status:
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
UU_Cfam_GSD_1.068,659,509 - 8,667,631 (-)NCBI
RefSeq Acc Id: XM_038539215   ⟹   XP_038395143
RefSeq Status:
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
UU_Cfam_GSD_1.068,659,509 - 8,667,490 (-)NCBI
RefSeq Acc Id: XM_038539216   ⟹   XP_038395144
RefSeq Status:
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
UU_Cfam_GSD_1.068,659,509 - 8,667,458 (-)NCBI
RefSeq Acc Id: XM_038539217   ⟹   XP_038395145
RefSeq Status:
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
UU_Cfam_GSD_1.068,659,509 - 8,667,631 (-)NCBI
RefSeq Acc Id: XM_038603292   ⟹   XP_038459220
RefSeq Status:
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
UNSW_CanFamBas_1.068,494,757 - 8,502,884 (-)NCBI
RefSeq Acc Id: XM_038603293   ⟹   XP_038459221
RefSeq Status:
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
UNSW_CanFamBas_1.068,494,757 - 8,502,743 (-)NCBI
RefSeq Acc Id: XM_038603294   ⟹   XP_038459222
RefSeq Status:
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
UNSW_CanFamBas_1.068,494,757 - 8,502,711 (-)NCBI
RefSeq Acc Id: XM_038603295   ⟹   XP_038459223
RefSeq Status:
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
UNSW_CanFamBas_1.068,494,757 - 8,502,884 (-)NCBI
RefSeq Acc Id: XM_038667997   ⟹   XP_038523925
RefSeq Status:
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
ROS_Cfam_1.068,564,002 - 8,572,131 (-)NCBI
RefSeq Acc Id: XM_038667998   ⟹   XP_038523926
RefSeq Status:
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
ROS_Cfam_1.068,564,002 - 8,571,990 (-)NCBI
RefSeq Acc Id: XM_038667999   ⟹   XP_038523927
RefSeq Status:
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
ROS_Cfam_1.068,564,002 - 8,571,958 (-)NCBI
RefSeq Acc Id: XM_038668000   ⟹   XP_038523928
RefSeq Status:
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
ROS_Cfam_1.068,564,002 - 8,572,131 (-)NCBI
Reference Sequences
RefSeq Acc Id: XP_005621063   ⟸   XM_005621006
- Sequence:
RefSeq Acc Id: XP_005621064   ⟸   XM_005621007
- Sequence:
RefSeq Acc Id: ENSCAFP00000063067   ⟸   ENSCAFT00000022073
RefSeq Acc Id: XP_038333884   ⟸   XM_038477956
RefSeq Acc Id: XP_038333881   ⟸   XM_038477953
RefSeq Acc Id: XP_038333882   ⟸   XM_038477954
RefSeq Acc Id: XP_038333883   ⟸   XM_038477955
RefSeq Acc Id: XP_038459223   ⟸   XM_038603295
RefSeq Acc Id: XP_038459220   ⟸   XM_038603292
RefSeq Acc Id: XP_038459221   ⟸   XM_038603293
RefSeq Acc Id: XP_038459222   ⟸   XM_038603294
RefSeq Acc Id: XP_038523928   ⟸   XM_038668000
RefSeq Acc Id: XP_038523925   ⟸   XM_038667997
RefSeq Acc Id: XP_038523926   ⟸   XM_038667998
RefSeq Acc Id: XP_038523927   ⟸   XM_038667999
RefSeq Acc Id: XP_038393996   ⟸   XM_038538068
RefSeq Acc Id: XP_038393979   ⟸   XM_038538051
RefSeq Acc Id: XP_038395145   ⟸   XM_038539217
RefSeq Acc Id: XP_038395142   ⟸   XM_038539214
RefSeq Acc Id: XP_038395143   ⟸   XM_038539215
RefSeq Acc Id: XP_038395144   ⟸   XM_038539216
Protein Domains
B box-type   RING-type


Additional Information

Database Acc Id Source(s)
Ensembl Genes ENSCAFG00000013913 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Protein ENSCAFP00000063067 ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSCAFT00000022073 UniProtKB/TrEMBL
Gene3D-CATH 2.120.10.30 UniProtKB/TrEMBL
  3.30.40.10 UniProtKB/TrEMBL
InterPro 6-blade_b-propeller_TolB-like UniProtKB/TrEMBL
  Znf-RING_LisH UniProtKB/TrEMBL
  Znf_B-box UniProtKB/TrEMBL
  Znf_RING UniProtKB/TrEMBL
  Znf_RING/FYVE/PHD UniProtKB/TrEMBL
  Znf_RING_CS UniProtKB/TrEMBL
KEGG Report cfa:608281 UniProtKB/TrEMBL
NCBI Gene TRIM56 ENTREZGENE
Pfam zf-B_box UniProtKB/TrEMBL
  zf-RING_UBOX UniProtKB/TrEMBL
PROSITE ZF_BBOX UniProtKB/TrEMBL
  ZF_RING_1 UniProtKB/TrEMBL
  ZF_RING_2 UniProtKB/TrEMBL
SMART BBOX UniProtKB/TrEMBL
  RING UniProtKB/TrEMBL
UniProt A0A5F4DE03_CANLF UniProtKB/TrEMBL