Trerf1 (transcriptional regulating factor 1) - Rat Genome Database

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Gene: Trerf1 (transcriptional regulating factor 1) Chinchilla lanigera
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Symbol: Trerf1
Name: transcriptional regulating factor 1
RGD ID: 8777792
Description: ENCODES a protein that exhibits nuclear progesterone receptor binding (ortholog); transcription coactivator activity (ortholog); transcription coactivator binding (ortholog); INVOLVED IN cellular response to progesterone stimulus (ortholog); positive regulation of DNA-templated transcription (ortholog); positive regulation of transcription by RNA polymerase II (ortholog); ASSOCIATED WITH Breast Neoplasms (ortholog); infantile Refsum disease (ortholog); Zellweger syndrome (ortholog); FOUND IN cytosol (ortholog); fibrillar center (ortholog); nucleoplasm (ortholog)
Type: protein-coding
RefSeq Status: MODEL
Previously known as: transcriptional-regulating factor 1
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
NCBI Annotation Information: Annotation category: partial on reference assembly
Position:
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049554378,413,408 - 8,451,256 (-)EnsemblChiLan1.0
ChiLan1.0NW_0049554378,411,951 - 8,600,283 (-)NCBIChiLan1.0ChiLan1.0
JBrowse: View Region in Genome Browser (JBrowse)
Model


Object Symbol
Species
Term
Qualifier
Evidence
With
Reference
Notes
Source
Original Reference(s)
Trerf1Chinchillainfantile Refsum disease  ISOTRERF1 (Homo sapiens)8554872ClinVar Annotator: match by term: ADRENOLEUKODYSTROPHY and AUTOSOMAL NEONATALClinVarPMID:19877282 more ...
Trerf1ChinchillaZellweger syndrome  ISOTRERF1 (Homo sapiens)8554872ClinVar Annotator: match by term: Peroxisome biogenesis disorders and Zellweger syndrome spectrumClinVarPMID:19877282 more ...
Object Symbol
Species
Term
Qualifier
Evidence
With
Reference
Notes
Source
Original Reference(s)
Trerf1ChinchillaBreast Neoplasms  ISOTRERF1 (Homo sapiens)9068941CTD Direct Evidence: marker/mechanismCTDPMID:19075277


Biological Process

  

Cellular Component

  
Object Symbol
Species
Term
Qualifier
Evidence
With
Reference
Notes
Source
Original Reference(s)
Trerf1Chinchillacytosol located_inISOTRERF1 (Homo sapiens)9068941 HPAGO_REF:0000052
Trerf1Chinchillafibrillar center located_inISOTRERF1 (Homo sapiens)9068941 HPAGO_REF:0000052
Trerf1Chinchillanucleoplasm located_inISOTRERF1 (Homo sapiens)9068941 HPAGO_REF:0000052
Trerf1Chinchillanucleus is_active_inISOTRERF1 (Homo sapiens)9068941 PMID:11349124GO_CentralPMID:11349124
Trerf1Chinchillanucleus located_inISOTRERF1 (Homo sapiens)9068941 PMID:16371131UniProtPMID:16371131

Molecular Function

  


#
Reference Title
Reference Citation
1. Transitive Annotation Pipeline Automated assignment of GO, PW and RDO ISO annotations across species
PMID:30032202  



Trerf1
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049554378,413,408 - 8,451,256 (-)EnsemblChiLan1.0
ChiLan1.0NW_0049554378,411,951 - 8,600,283 (-)NCBIChiLan1.0ChiLan1.0
TRERF1
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38642,224,931 - 42,452,224 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl642,224,931 - 42,452,051 (-)EnsemblGRCh38hg38GRCh38
GRCh37642,192,669 - 42,419,962 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 36642,303,842 - 42,527,761 (-)NCBINCBI36Build 36hg18NCBI36
Build 34642,303,842 - 42,527,761NCBI
Celera643,745,111 - 43,972,220 (-)NCBICelera
Cytogenetic Map6p21.1NCBI
HuRef641,910,461 - 42,137,937 (-)NCBIHuRef
CHM1_1642,195,138 - 42,422,851 (-)NCBICHM1_1
T2T-CHM13v2.0642,053,174 - 42,280,526 (-)NCBIT2T-CHM13v2.0
Trerf1
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391747,451,868 - 47,673,250 (+)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl1747,451,801 - 47,672,883 (+)EnsemblGRCm39 Ensembl
GRCm381747,140,942 - 47,362,325 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1747,140,875 - 47,361,958 (+)EnsemblGRCm38mm10GRCm38
MGSCv371747,277,891 - 47,496,407 (+)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv361746,777,140 - 46,822,640 (+)NCBIMGSCv36mm8
Celera1750,576,035 - 50,794,248 (+)NCBICelera
Cytogenetic Map17CNCBI
cM Map1722.91NCBI
Trerf1
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr8921,131,772 - 21,355,830 (-)NCBIGRCr8
mRatBN7.2913,631,619 - 13,858,326 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl913,634,126 - 13,857,029 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx922,214,390 - 22,258,656 (-)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0927,278,246 - 27,322,500 (-)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0925,577,796 - 25,622,040 (-)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.0915,653,230 - 15,881,695 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl915,655,735 - 15,700,312 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.0914,574,701 - 14,796,459 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.499,092,501 - 9,136,587 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.199,087,025 - 9,122,687 (-)NCBI
Celera911,384,447 - 11,428,680 (-)NCBICelera
Cytogenetic Map9q12NCBI
TRERF1
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v2556,724,129 - 56,948,294 (-)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan1652,594,147 - 52,818,245 (-)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v0641,813,074 - 42,040,373 (-)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.1643,112,581 - 43,339,228 (-)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl643,112,170 - 43,156,872 (-)Ensemblpanpan1.1panPan2
TRERF1
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.11210,838,887 - 11,047,017 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl1210,842,059 - 10,962,677 (-)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha1210,871,264 - 11,074,860 (-)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.01211,323,287 - 11,528,100 (-)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl1211,320,515 - 11,527,717 (-)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.11210,852,754 - 11,056,576 (-)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.01210,936,664 - 11,141,706 (-)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.01211,030,924 - 11,235,545 (-)NCBIUU_Cfam_GSD_1.0
Trerf1
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440494646,304,751 - 46,521,069 (-)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_00493647617,527,394 - 17,655,453 (+)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_00493647617,439,172 - 17,654,425 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
TRERF1
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl737,333,947 - 37,554,570 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.1737,333,379 - 37,555,299 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.2742,789,819 - 43,111,443 (-)NCBISscrofa10.2Sscrofa10.2susScr3
TRERF1
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.11729,700,505 - 29,927,247 (+)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl1729,883,231 - 29,927,388 (+)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_02366604442,249,760 - 42,476,927 (-)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Trerf1
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_00462475417,023,086 - 17,061,255 (+)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_00462475416,865,636 - 17,062,477 (+)NCBIHetGla_female_1.0HetGla 1.0hetGla2

.






Ensembl Acc Id: ENSCLAT00000016235   ⟹   ENSCLAP00000016071
Type: CODING
Position:
Chinchilla AssemblyChrPosition (strand)Source
ChiLan1.0 EnsemblNW_0049554378,413,408 - 8,451,256 (-)Ensembl
RefSeq Acc Id: XM_013516789   ⟹   XP_013372243
Type: CODING
Position:
Chinchilla AssemblyChrPosition (strand)Source
ChiLan1.0NW_0049554378,411,951 - 8,600,283 (-)NCBI
Sequence:
Protein RefSeqs XP_013372243 (Get FASTA)   NCBI Sequence Viewer  
Ensembl Protein ENSCLAP00000016071
  ENSCLAP00000016071.1
RefSeq Acc Id: XP_013372243   ⟸   XM_013516789
- UniProtKB: A0A8C2YQL6 (UniProtKB/TrEMBL)
- Sequence:
Ensembl Acc Id: ENSCLAP00000016071   ⟸   ENSCLAT00000016235
C2H2-type   ELM2   SANT



1 to 27 of 27 rows
Database
Acc Id
Source(s)
Ensembl Genes ENSCLAG00000011059 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSCLAT00000016235 ENTREZGENE
  ENSCLAT00000016235.1 UniProtKB/TrEMBL
Gene3D-CATH Classic Zinc Finger UniProtKB/TrEMBL
  Homeodomain-like UniProtKB/TrEMBL
InterPro ELM2_dom UniProtKB/TrEMBL
  Homeobox-like_sf UniProtKB/TrEMBL
  SANT/Myb UniProtKB/TrEMBL
  SANT_dom UniProtKB/TrEMBL
  Trans_reg/Corepressor UniProtKB/TrEMBL
  Znf_C2H2_sf UniProtKB/TrEMBL
  Znf_C2H2_type UniProtKB/TrEMBL
NCBI Gene Trerf1 ENTREZGENE
PANTHER REST COREPRESSOR COREST PROTEIN-RELATED UniProtKB/TrEMBL
  TRANSCRIPTIONAL-REGULATING FACTOR 1 UniProtKB/TrEMBL
Pfam ELM2 UniProtKB/TrEMBL
  zf-C2H2_6 UniProtKB/TrEMBL
PROSITE ELM2 UniProtKB/TrEMBL
  SANT UniProtKB/TrEMBL
  ZINC_FINGER_C2H2_1 UniProtKB/TrEMBL
  ZINC_FINGER_C2H2_2 UniProtKB/TrEMBL
SMART ELM2 UniProtKB/TrEMBL
  SANT UniProtKB/TrEMBL
  ZnF_C2H2 UniProtKB/TrEMBL
Superfamily-SCOP SSF46689 UniProtKB/TrEMBL
  SSF57667 UniProtKB/TrEMBL
UniProt A0A8C2YQL6 ENTREZGENE, UniProtKB/TrEMBL
1 to 27 of 27 rows