Trerf1 (transcriptional regulating factor 1) - Rat Genome Database

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Gene: Trerf1 (transcriptional regulating factor 1) Chinchilla lanigera
Analyze
Symbol: Trerf1
Name: transcriptional regulating factor 1
RGD ID: 8777792
Description: ENCODES a protein that exhibits nuclear progesterone receptor binding (ortholog); nuclear receptor coactivator activity (ortholog); transcription coactivator activity (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); genetic disease (ortholog); infantile Refsum disease (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


Disease Annotations     Click to see Annotation Detail View

Gene Ontology Annotations     Click to see Annotation Detail View

Cellular Component
cytosol  (ISO)
fibrillar center  (ISO)
nucleoplasm  (ISO)
nucleus  (ISO)

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:30032202  


Genomics

Comparative Map Data
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


Expression


Sequence


Reference Sequences
RefSeq 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 Sequences
Protein RefSeqs XP_013372243 (Get FASTA)   NCBI Sequence Viewer  
Ensembl Protein ENSCLAP00000016071
  ENSCLAP00000016071.1
Reference Protein Sequences
RefSeq Acc Id: XP_013372243   ⟸   XM_013516789
- UniProtKB: A0A8C2YQL6 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: ENSCLAP00000016071   ⟸   ENSCLAT00000016235
Protein Domains
C2H2-type   ELM2   SANT


Additional Information

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
  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