Trim23 (tripartite motif containing 23) - Rat Genome Database

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Gene: Trim23 (tripartite motif containing 23) Chinchilla lanigera
Analyze
Symbol: Trim23
Name: tripartite motif containing 23
RGD ID: 8737717
Description: ENCODES a protein that exhibits GDP binding (ortholog); GTP binding (ortholog); GTPase activity (ortholog); INVOLVED IN positive regulation of autophagy (ortholog); positive regulation of protein modification process (ortholog); protein ubiquitination (ortholog); ASSOCIATED WITH Neurodevelopmental Disorders (ortholog); FOUND IN cytoplasm (ortholog); Golgi membrane (ortholog); lysosomal membrane (ortholog)
Type: protein-coding
RefSeq Status: MODEL
Previously known as: E3 ubiquitin-protein ligase TRIM23
RGD Orthologs
Human
Mouse
Rat
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Orthologs
More Info more info ...
Latest Assembly: ChiLan1.0 - Chinchilla ChiLan1.0 Assembly
Position:
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049554463,479,858 - 3,509,050 (+)EnsemblChiLan1.0
ChiLan1.0NW_0049554463,480,177 - 3,509,050 (+)NCBIChiLan1.0ChiLan1.0
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

Biological Process

Cellular Component

Molecular Function

References

References - curated
# Reference Title Reference Citation
1. Transitive Annotation Pipeline Automated assignment of GO, PW and RDO ISO annotations across species
Additional References at PubMed
PMID:22301074   PMID:30032202  


Genomics

Comparative Map Data
Trim23
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049554463,479,858 - 3,509,050 (+)EnsemblChiLan1.0
ChiLan1.0NW_0049554463,480,177 - 3,509,050 (+)NCBIChiLan1.0ChiLan1.0
TRIM23
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38565,589,690 - 65,624,333 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl565,589,690 - 65,625,975 (-)EnsemblGRCh38hg38GRCh38
GRCh37564,885,517 - 64,920,160 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 36564,921,263 - 64,955,943 (-)NCBINCBI36Build 36hg18NCBI36
Celera561,883,967 - 61,918,646 (-)NCBICelera
Cytogenetic Map5q12.3NCBI
HuRef561,841,543 - 61,876,240 (-)NCBIHuRef
CHM1_1564,885,060 - 64,919,737 (-)NCBICHM1_1
T2T-CHM13v2.0566,411,457 - 66,448,919 (-)NCBIT2T-CHM13v2.0
Trim23
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm3913104,315,187 - 104,339,983 (+)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl13104,315,305 - 104,339,880 (+)EnsemblGRCm39 Ensembl
GRCm3813104,178,839 - 104,203,475 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl13104,178,797 - 104,203,372 (+)EnsemblGRCm38mm10GRCm38
MGSCv3713104,969,178 - 104,992,128 (+)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv3613105,299,480 - 105,322,430 (+)NCBIMGSCv36mm8
Celera13108,571,875 - 108,594,822 (+)NCBICelera
Cytogenetic Map13D1NCBI
cM Map1356.35NCBI
Trim23
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr8237,036,193 - 37,069,024 (+)NCBIGRCr8
mRatBN7.2235,302,405 - 35,335,746 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl235,302,409 - 35,335,743 (+)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx242,415,324 - 42,448,196 (+)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0240,474,019 - 40,506,883 (+)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0235,330,679 - 35,363,505 (+)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.0234,255,300 - 34,288,140 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl234,255,305 - 34,288,139 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.0253,383,587 - 53,416,926 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4235,101,019 - 35,135,028 (+)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.1235,021,536 - 35,053,519 (+)NCBI
Celera231,278,878 - 31,311,698 (+)NCBICelera
Cytogenetic Map2q13NCBI
TRIM23
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v2448,297,784 - 48,332,434 (+)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan1546,451,411 - 46,486,044 (+)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v0548,382,696 - 48,417,349 (+)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.1550,036,475 - 50,071,457 (+)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl550,036,475 - 50,071,457 (+)Ensemblpanpan1.1panPan2
TRIM23
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1251,323,341 - 51,360,193 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl251,325,038 - 51,360,117 (-)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha248,278,874 - 48,316,065 (-)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.0251,814,356 - 51,851,549 (-)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl251,814,365 - 51,851,549 (-)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.1248,874,086 - 48,911,283 (-)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.0249,663,193 - 49,700,381 (-)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0250,555,618 - 50,592,810 (-)NCBIUU_Cfam_GSD_1.0
Trim23
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_024407213194,621,173 - 194,657,440 (+)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_0049364803,556,592 - 3,592,984 (+)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_0049364803,557,699 - 3,593,514 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
TRIM23
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl1644,103,789 - 44,146,280 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.11644,103,339 - 44,146,291 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.21647,452,599 - 47,495,545 (-)NCBISscrofa10.2Sscrofa10.2susScr3
TRIM23
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1461,781,880 - 61,816,670 (-)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl461,784,002 - 61,816,638 (-)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_02366604910,424,835 - 10,459,559 (-)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Trim23
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_0046248154,246,884 - 4,287,316 (+)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_0046248154,246,939 - 4,289,262 (+)NCBIHetGla_female_1.0HetGla 1.0hetGla2


Expression

RNA-SEQ Expression


Sequence


Ensembl Acc Id: ENSCLAT00000009739   ⟹   ENSCLAP00000009610
Type: CODING
Position:
Chinchilla AssemblyChrPosition (strand)Source
ChiLan1.0 EnsemblNW_0049554463,479,858 - 3,509,050 (+)Ensembl
Ensembl Acc Id: ENSCLAT00000009740   ⟹   ENSCLAP00000009611
Type: CODING
Position:
Chinchilla AssemblyChrPosition (strand)Source
ChiLan1.0 EnsemblNW_0049554463,480,238 - 3,506,969 (+)Ensembl
RefSeq Acc Id: XM_005392627   ⟹   XP_005392684
Type: CODING
Position:
Chinchilla AssemblyChrPosition (strand)Source
ChiLan1.0NW_0049554463,480,177 - 3,509,050 (+)NCBI
Sequence:
Protein Sequences
Protein RefSeqs XP_005392684 (Get FASTA)   NCBI Sequence Viewer  
Ensembl Protein ENSCLAP00000009610
  ENSCLAP00000009610.1
  ENSCLAP00000009611.1
RefSeq Acc Id: XP_005392684   ⟸   XM_005392627
- UniProtKB: A0A8C2V391 (UniProtKB/TrEMBL),   A0A8C2V3L1 (UniProtKB/TrEMBL)
- Sequence:
Ensembl Acc Id: ENSCLAP00000009611   ⟸   ENSCLAT00000009740
Ensembl Acc Id: ENSCLAP00000009610   ⟸   ENSCLAT00000009739
Protein Domains
B box-type   C2H2-type   RING-type


Additional Information

Database Acc Id Source(s)
Ensembl Genes ENSCLAG00000006665 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSCLAT00000009739 ENTREZGENE
  ENSCLAT00000009739.1 UniProtKB/TrEMBL
  ENSCLAT00000009740.1 UniProtKB/TrEMBL
Gene3D-CATH 3.30.40.10 UniProtKB/TrEMBL
  3.40.50.300 UniProtKB/TrEMBL
  Classic Zinc Finger UniProtKB/TrEMBL
InterPro Bbox_C UniProtKB/TrEMBL
  P-loop_NTPase UniProtKB/TrEMBL
  Small_GTP-bd_dom UniProtKB/TrEMBL
  Small_GTPase_ARF UniProtKB/TrEMBL
  Small_GTPase_ARF/SAR UniProtKB/TrEMBL
  Znf-RING_LisH UniProtKB/TrEMBL
  Znf_B-box UniProtKB/TrEMBL
  Znf_C2H2_type UniProtKB/TrEMBL
  Znf_RING UniProtKB/TrEMBL
  Znf_RING/FYVE/PHD UniProtKB/TrEMBL
  Znf_RING_CS UniProtKB/TrEMBL
NCBI Gene Trim23 ENTREZGENE
PANTHER E3 UBIQUITIN-PROTEIN LIGASE TRIM23 UniProtKB/TrEMBL
  PTHR11711 UniProtKB/TrEMBL
Pfam Arf UniProtKB/TrEMBL
  zf-B_box UniProtKB/TrEMBL
  zf-RING_UBOX UniProtKB/TrEMBL
PRINTS SAR1GTPBP UniProtKB/TrEMBL
PROSITE ARF UniProtKB/TrEMBL
  ZF_BBOX UniProtKB/TrEMBL
  ZF_RING_1 UniProtKB/TrEMBL
  ZF_RING_2 UniProtKB/TrEMBL
  ZINC_FINGER_C2H2_2 UniProtKB/TrEMBL
SMART ARF UniProtKB/TrEMBL
  BBC UniProtKB/TrEMBL
  BBOX UniProtKB/TrEMBL
  RAB UniProtKB/TrEMBL
  RING UniProtKB/TrEMBL
  SAR UniProtKB/TrEMBL
Superfamily-SCOP B-box zinc-binding domain UniProtKB/TrEMBL
  RING/U-box UniProtKB/TrEMBL
  SSF52540 UniProtKB/TrEMBL
UniProt A0A8C2V391 ENTREZGENE, UniProtKB/TrEMBL
  A0A8C2V3L1 ENTREZGENE, UniProtKB/TrEMBL