Rfx5 (regulatory factor X5) - Rat Genome Database

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Gene: Rfx5 (regulatory factor X5) Heterocephalus glaber
Analyze
Symbol: Rfx5
Name: regulatory factor X5
RGD ID: 18932213
Description: ENCODES a protein that exhibits transcription coregulator binding (ortholog); INVOLVED IN positive regulation of MHC class II biosynthetic process (ortholog); ASSOCIATED WITH Dravet syndrome (ortholog); gastrointestinal stromal tumor (ortholog); immunodeficiency 42 (ortholog); FOUND IN intracellular membrane-bounded organelle (inferred); nucleoplasm (inferred); nucleus (inferred)
Type: protein-coding
RefSeq Status: MODEL
Previously known as: DNA-binding protein RFX5
RGD Orthologs
Human
Mouse
Rat
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Alliance Orthologs
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_00462477218,517,305 - 18,523,220 (+)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_00462477218,517,829 - 18,523,220 (+)NCBIHetGla_female_1.0HetGla 1.0hetGla2
JBrowse: View Region in Genome Browser (JBrowse)
Model


1 to 13 of 13 rows
Object Symbol
Species
Term
Qualifier
Evidence
With
Reference
Notes
Source
Original Reference(s)
Rfx5Naked Mole-RatDravet syndrome  ISORFX5 (Homo sapiens)8554872ClinVar Annotator: match by term: Severe myoclonic epilepsy in infancyClinVarPMID:25894286 and PMID:28492532
Rfx5Naked Mole-Ratgastrointestinal stromal tumor  ISORFX5 (Homo sapiens)8554872ClinVar Annotator: match by term: Gastrointestinal stromal tumorClinVarPMID:28492532
Rfx5Naked Mole-Ratimmunodeficiency 42  ISORFX5 (Homo sapiens)8554872ClinVar Annotator: match by term: Autosomal recessive mendelian susceptibility to mycobacterial diseases due to complete RORgamma receptor deficiencyClinVarPMID:28492532
Rfx5Naked Mole-RatMHC class II deficiency  ISORFX5 (Homo sapiens)8554872ClinVar Annotator: match by term: MHC class II deficiencyClinVarPMID:10079298 more ...
Rfx5Naked Mole-RatMHC class II deficiency  ISORFX5 (Homo sapiens)8554872ClinVar more ...ClinVarPMID:10079298 more ...
Rfx5Naked Mole-RatMHC class II deficiency  ISORFX5 (Homo sapiens)8554872ClinVar more ...ClinVarPMID:10079298 more ...
Rfx5Naked Mole-RatMHC CLASS II DEFICIENCY 1  ISORFX5 (Homo sapiens)8554872ClinVar Annotator: match by term: BARE LYMPHOCYTE SYNDROME more ...ClinVarPMID:10079298 more ...
Rfx5Naked Mole-RatMHC CLASS II DEFICIENCY 3  ISORFX5 (Homo sapiens)8554872ClinVar Annotator: match by term: MHC class II deficiency 3ClinVarPMID:10079298 more ...
Rfx5Naked Mole-RatMHC CLASS II DEFICIENCY 5  ISORFX5 (Homo sapiens)8554872ClinVar Annotator: match by term: MHC class II deficiency 5ClinVarPMID:12368908 more ...
Rfx5Naked Mole-Ratparathyroid carcinoma  ISORFX5 (Homo sapiens)8554872ClinVar Annotator: match by term: Parathyroid carcinomaClinVarPMID:28492532
Rfx5Naked Mole-Ratsevere combined immunodeficiency  ISORFX5 (Homo sapiens)8554872ClinVar Annotator: match by term: Bare Lymphocyte SyndromeClinVarPMID:10079298 more ...
Rfx5Naked Mole-Ratsevere congenital neutropenia 3  ISORFX5 (Homo sapiens)8554872ClinVar Annotator: match by term: Kostmann syndromeClinVarPMID:28492532
Rfx5Naked Mole-Ratsevere congenital neutropenia 5  ISORFX5 (Homo sapiens)8554872ClinVar Annotator: match by term: Congenital neutropenia-myelofibrosis-nephromegaly syndromeClinVarPMID:28492532
1 to 13 of 13 rows
Object Symbol
Species
Term
Qualifier
Evidence
With
Reference
Notes
Source
Original Reference(s)
Rfx5Naked Mole-RatMHC CLASS II DEFICIENCY 3  ISORFX5 (Homo sapiens)7240710 OMIM 
Rfx5Naked Mole-RatMHC CLASS II DEFICIENCY 5  ISORFX5 (Homo sapiens)7240710 OMIM 


Biological Process

  
Object Symbol
Species
Term
Qualifier
Evidence
With
Reference
Notes
Source
Original Reference(s)
Rfx5Naked Mole-Ratnegative regulation of transcription by RNA polymerase II acts_upstream_of_or_withinIEAUniProtKB:Q9JL61 and ensembl:ENSMUSP00000117963150520179 EnsemblGO_REF:0000107
Rfx5Naked Mole-Ratpositive regulation of MHC class II biosynthetic process involved_inISORFX5 (Homo sapiens)9068941 PMID:19041327BHF-UCLPMID:19041327
Rfx5Naked Mole-Ratpositive regulation of transcription by RNA polymerase II involved_inIEAUniProtKB:P48382 and ensembl:ENSP00000389130150520179 EnsemblGO_REF:0000107
Rfx5Naked Mole-Ratregulation of DNA-templated transcription involved_inIEAInterPro:IPR003150150520179 InterProGO_REF:0000002
Rfx5Naked Mole-Ratregulation of transcription by RNA polymerase II involved_inIEAPANTHER:PTN000289663150520179 TreeGrafterGO_REF:0000118

Cellular Component

  
Object Symbol
Species
Term
Qualifier
Evidence
With
Reference
Notes
Source
Original Reference(s)
Rfx5Naked Mole-Ratintracellular membrane-bounded organelle located_inIEAUniProtKB:P48382 and ensembl:ENSP00000389130150520179 EnsemblGO_REF:0000107
Rfx5Naked Mole-Ratnucleoplasm located_inIEAUniProtKB:P48382 and ensembl:ENSP00000389130150520179 EnsemblGO_REF:0000107
Rfx5Naked Mole-Ratnucleus located_inIEAUniProtKB:P48382 and ensembl:ENSP00000389130150520179 EnsemblGO_REF:0000107
Rfx5Naked Mole-RatRNA polymerase II transcription regulator complex part_ofIEAUniProtKB:P48382 and ensembl:ENSP00000389130150520179 EnsemblGO_REF:0000107

Molecular Function
1 to 15 of 15 rows

  
Object Symbol
Species
Term
Qualifier
Evidence
With
Reference
Notes
Source
Original Reference(s)
Rfx5Naked Mole-RatDNA binding enablesIEAInterPro:IPR003150150520179 InterProGO_REF:0000002
Rfx5Naked Mole-RatDNA binding enablesIEAUniProtKB-KW:KW-0238150520179 UniProtGO_REF:0000043
Rfx5Naked Mole-RatDNA-binding transcription activator activity, RNA polymerase II-specific enablesIEAUniProtKB:P48382 and ensembl:ENSP00000389130150520179 EnsemblGO_REF:0000107
Rfx5Naked Mole-RatDNA-binding transcription factor activity enablesIEAInterPro:IPR039779150520179 InterProGO_REF:0000002
Rfx5Naked Mole-RatDNA-binding transcription factor activity, RNA polymerase II-specific enablesIEAPANTHER:PTN000289663150520179 TreeGrafterGO_REF:0000118
Rfx5Naked Mole-Ratprotein binding enablesISOUniProtKB:Q927699068941 PMID:16464847IntActPMID:16464847
Rfx5Naked Mole-Ratprotein binding enablesISOUniProtKB:O145939068941 PMID:20211142 and PMID:25752541IntActPMID:20211142 and PMID:25752541
Rfx5Naked Mole-Ratprotein binding enablesISOUniProtKB:O002879068941 PMID:20732328 more ...IntActPMID:20732328 more ...
Rfx5Naked Mole-Ratprotein binding enablesISOUniProtKB:O00287 more ...9068941 PMID:10938133IntActPMID:10938133
Rfx5Naked Mole-Ratprotein binding enablesISOUniProtKB:O00287 and UniProtKB:O145939068941 PMID:33961781IntActPMID:33961781
Rfx5Naked Mole-RatRNA polymerase II cis-regulatory region sequence-specific DNA binding enablesIEAPANTHER:PTN000289663150520179 TreeGrafterGO_REF:0000118
Rfx5Naked Mole-RatRNA polymerase II transcription regulatory region sequence-specific DNA binding enablesIEAUniProtKB:P48382 and ensembl:ENSP00000389130150520179 EnsemblGO_REF:0000107
Rfx5Naked Mole-Ratsequence-specific DNA binding enablesIEAUniProtKB:P48382 and ensembl:ENSP00000389130150520179 EnsemblGO_REF:0000107
Rfx5Naked Mole-Ratsequence-specific double-stranded DNA binding enablesIEAUniProtKB:P48382 and ensembl:ENSP00000389130150520179 EnsemblGO_REF:0000107
Rfx5Naked Mole-Rattranscription coregulator binding enablesISOUniProtKB:P330769068941 PMID:19041327BHF-UCLPMID:19041327
1 to 15 of 15 rows

PMID:21993625   PMID:30032202  



Rfx5
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_00462477218,517,305 - 18,523,220 (+)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_00462477218,517,829 - 18,523,220 (+)NCBIHetGla_female_1.0HetGla 1.0hetGla2
RFX5
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh381151,340,640 - 151,347,252 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl1151,340,640 - 151,347,326 (-)EnsemblGRCh38hg38GRCh38
GRCh371151,313,116 - 151,319,728 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 361149,579,740 - 149,586,393 (-)NCBINCBI36Build 36hg18NCBI36
Build 341148,126,189 - 148,132,773NCBI
Celera1124,428,407 - 124,435,060 (-)NCBICelera
Cytogenetic Map1q21.3NCBI
HuRef1122,691,259 - 122,697,912 (-)NCBIHuRef
CHM1_11152,708,791 - 152,715,444 (-)NCBICHM1_1
T2T-CHM13v2.01150,464,344 - 150,470,955 (-)NCBIT2T-CHM13v2.0
Rfx5
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39394,861,355 - 94,868,685 (+)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl394,861,386 - 94,868,872 (+)EnsemblGRCm39 Ensembl
GRCm38394,950,689 - 94,961,561 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl394,954,075 - 94,961,561 (+)EnsemblGRCm38mm10GRCm38
MGSCv37394,758,937 - 94,765,483 (+)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv36395,039,585 - 95,046,965 (+)NCBIMGSCv36mm8
Celera396,386,303 - 96,392,849 (+)NCBICelera
Cytogenetic Map3F2.1NCBI
cM Map340.74NCBI
Rfx5
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr82185,210,206 - 185,217,735 (+)NCBIGRCr8
mRatBN7.22182,521,191 - 182,528,720 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl2182,521,202 - 182,528,717 (+)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx2190,185,995 - 190,193,500 (+)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.02187,981,722 - 187,989,233 (+)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.02182,818,476 - 182,825,981 (+)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.02196,119,054 - 196,128,109 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl2196,120,580 - 196,128,095 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.02215,615,220 - 215,622,795 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.42189,855,438 - 189,862,953 (+)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.12189,815,436 - 189,820,045 (+)NCBI
Celera2175,063,246 - 175,070,761 (+)NCBICelera
Cytogenetic Map2q34NCBI
Rfx5
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_004955588689,170 - 695,695 (-)EnsemblChiLan1.0
ChiLan1.0NW_004955588687,086 - 695,696 (-)NCBIChiLan1.0ChiLan1.0
RFX5
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v2198,476,202 - 98,482,978 (+)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan1198,227,435 - 98,234,205 (+)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v01126,699,772 - 126,706,486 (-)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.11130,345,977 - 130,352,728 (-)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl1130,345,977 - 130,352,317 (-)Ensemblpanpan1.1panPan2
RFX5
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.11760,393,773 - 60,400,150 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl1760,395,321 - 60,400,009 (-)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha1759,837,260 - 59,843,619 (-)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.01761,410,233 - 61,416,589 (-)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl1761,411,449 - 61,416,477 (-)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.11760,238,121 - 60,244,473 (-)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.01760,324,024 - 60,330,356 (-)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.01761,052,663 - 61,059,019 (-)NCBIUU_Cfam_GSD_1.0
Rfx5
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440505822,502,460 - 22,509,971 (-)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_0049365801,535,069 - 1,539,889 (-)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_0049365801,532,806 - 1,540,353 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
RFX5
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl497,902,172 - 97,913,283 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.1497,901,955 - 97,913,283 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.24107,102,324 - 107,109,405 (+)NCBISscrofa10.2Sscrofa10.2susScr3
RFX5
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.12012,345,078 - 12,351,699 (+)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl2012,345,063 - 12,352,646 (+)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_02366603811,919,702 - 11,926,453 (+)NCBIVero_WHO_p1.0Vero_WHO_p1.0

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Ensembl Acc Id: ENSHGLT00000006977   ⟹   ENSHGLP00000006893
Type: CODING
Position:
Naked Mole-Rat AssemblyChrPosition (strand)Source
HetGla_female_1.0 EnsemblNW_00462477218,517,305 - 18,523,220 (+)Ensembl
Ensembl Acc Id: ENSHGLT00000006978   ⟹   ENSHGLP00000006894
Type: CODING
Position:
Naked Mole-Rat AssemblyChrPosition (strand)Source
HetGla_female_1.0 EnsemblNW_00462477218,518,832 - 18,523,015 (+)Ensembl
Ensembl Acc Id: ENSHGLT00000006979   ⟹   ENSHGLP00000006895
Type: CODING
Position:
Naked Mole-Rat AssemblyChrPosition (strand)Source
HetGla_female_1.0 EnsemblNW_00462477218,518,850 - 18,521,887 (+)Ensembl
RefSeq Acc Id: XM_004853993   ⟹   XP_004854050
Type: CODING
Position:
Naked Mole-Rat AssemblyChrPosition (strand)Source
HetGla 1.0NW_00462477218,517,829 - 18,523,220 (+)NCBI
RefSeq Acc Id: XM_004853994   ⟹   XP_004854051
Type: CODING
Position:
Naked Mole-Rat AssemblyChrPosition (strand)Source
HetGla 1.0NW_00462477218,518,070 - 18,523,220 (+)NCBI
Protein RefSeqs XP_004854050 (Get FASTA)   NCBI Sequence Viewer  
  XP_004854051 (Get FASTA)   NCBI Sequence Viewer  
GenBank Protein EHA97361 (Get FASTA)   NCBI Sequence Viewer  
Ensembl Protein ENSHGLP00000006894
RefSeq Acc Id: XP_004854050   ⟸   XM_004853993
- UniProtKB: G5AK01 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_004854051   ⟸   XM_004853994
- UniProtKB: G5AK01 (UniProtKB/TrEMBL)
Ensembl Acc Id: ENSHGLP00000006894   ⟸   ENSHGLT00000006978
Ensembl Acc Id: ENSHGLP00000006893   ⟸   ENSHGLT00000006977
Ensembl Acc Id: ENSHGLP00000006895   ⟸   ENSHGLT00000006979



1 to 20 of 20 rows
Database
Acc Id
Source(s)
Ensembl Genes ENSHGLG00000005034 Ensembl, ENTREZGENE
Ensembl Transcript ENSHGLT00000006978 ENTREZGENE
Gene3D-CATH 1.10.10.10 UniProtKB/TrEMBL
  6.10.140.1290 UniProtKB/TrEMBL
InterPro DNA-bd_RFX UniProtKB/TrEMBL
  RFX-like UniProtKB/TrEMBL
  RFX5_C UniProtKB/TrEMBL
  WH-like_DNA-bd_sf UniProtKB/TrEMBL
  WH_DNA-bd_sf UniProtKB/TrEMBL
KEGG Report hgl:101698005 UniProtKB/TrEMBL
NCBI Gene Rfx5 ENTREZGENE
PANTHER PTHR12619 UniProtKB/TrEMBL
  PTHR12619:SF18 UniProtKB/TrEMBL
Pfam RFX5_DNA_bdg UniProtKB/TrEMBL
  RFX5_N UniProtKB/TrEMBL
  RFX_DNA_binding UniProtKB/TrEMBL
PROSITE RFX_DBD UniProtKB/TrEMBL
SMART RFX5_DNA_bdg UniProtKB/TrEMBL
Superfamily-SCOP SSF46785 UniProtKB/TrEMBL
UniProt G5AK01 ENTREZGENE, UniProtKB/TrEMBL
1 to 20 of 20 rows