Hcfc1r1 (host cell factor C1 regulator 1) - Rat Genome Database

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Gene: Hcfc1r1 (host cell factor C1 regulator 1) Rattus norvegicus
Analyze
Symbol: Hcfc1r1
Name: host cell factor C1 regulator 1
RGD ID: 727975
Description: Predicted to be located in cytoplasm and nucleus. Orthologous to human HCFC1R1 (host cell factor C1 regulator 1); INTERACTS WITH 2,3,7,8-tetrachlorodibenzodioxine; 4,4'-sulfonyldiphenol; ammonium chloride.
Type: protein-coding
RefSeq Status: VALIDATED
Previously known as: HCF-1 beta-propeller interacting protein; HCF-1 beta-propeller-interacting protein; host cell factor C1 regulator 1 (XPO1-dependent); Hpip; inhibitor of four 2
RGD Orthologs
Human
Mouse
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Black Rat
Alliance Orthologs
More Info more info ...
Latest Assembly: GRCr8 - GRCr8 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr81013,209,757 - 13,211,445 (+)NCBIGRCr8GRCr8GRCr8
GRCr8 Ensembl1013,209,558 - 13,211,443 (+)EnsemblGRCr8
mRatBN7.21012,705,139 - 12,706,852 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1012,705,077 - 12,706,850 (+)EnsemblmRatBN7.2
UTH_Rnor_SHR_Utx1017,448,631 - 17,450,249 (+)NCBIUTH_Rnor_SHR_UtxUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.01016,937,424 - 16,939,042 (+)NCBIUTH_Rnor_SHRSP_BbbUtx_1.0UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.01012,437,880 - 12,439,499 (+)NCBIUTH_Rnor_WKY_Bbb_1.0UTH_Rnor_WKY_Bbb_1.0
Rnor_6.01012,994,229 - 12,995,674 (+)NCBIRnor_6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1012,994,683 - 12,995,457 (+)Ensemblrn6Rnor6.0
Rnor_5.01012,817,272 - 12,818,719 (+)NCBIRnor_5.0Rnor_5.0rn5
RGSC_v3.41012,938,469 - 12,940,104 (+)NCBIRGSC_v3.4RGSC_v3.4rn4
Celera1012,400,534 - 12,402,153 (+)NCBICelera
RGSC_v3.11012,938,865 - 12,940,102 (+)NCBI
Cytogenetic Map10q12NCBI
JBrowse:




Gene Ontology Annotations     Click to see Annotation Detail View

Cellular Component
cytoplasm  (IEA)
nucleus  (IEA)

References

References - curated
# Reference Title Reference Citation
1. NCBI rat LocusLink and RefSeq merged data October 15, 2003 NCBI rat LocusLink and RefSeq merged data October 15, 2003
2. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
3. Information Derived from GenBank Report RGD, Sept. 2003
Additional References at PubMed
PMID:8889548   PMID:12477932  


Genomics

Comparative Map Data
Hcfc1r1
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr81013,209,757 - 13,211,445 (+)NCBIGRCr8GRCr8GRCr8
GRCr8 Ensembl1013,209,558 - 13,211,443 (+)EnsemblGRCr8
mRatBN7.21012,705,139 - 12,706,852 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1012,705,077 - 12,706,850 (+)EnsemblmRatBN7.2
UTH_Rnor_SHR_Utx1017,448,631 - 17,450,249 (+)NCBIUTH_Rnor_SHR_UtxUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.01016,937,424 - 16,939,042 (+)NCBIUTH_Rnor_SHRSP_BbbUtx_1.0UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.01012,437,880 - 12,439,499 (+)NCBIUTH_Rnor_WKY_Bbb_1.0UTH_Rnor_WKY_Bbb_1.0
Rnor_6.01012,994,229 - 12,995,674 (+)NCBIRnor_6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1012,994,683 - 12,995,457 (+)Ensemblrn6Rnor6.0
Rnor_5.01012,817,272 - 12,818,719 (+)NCBIRnor_5.0Rnor_5.0rn5
RGSC_v3.41012,938,469 - 12,940,104 (+)NCBIRGSC_v3.4RGSC_v3.4rn4
Celera1012,400,534 - 12,402,153 (+)NCBICelera
RGSC_v3.11012,938,865 - 12,940,102 (+)NCBI
Cytogenetic Map10q12NCBI
HCFC1R1
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38163,022,620 - 3,024,286 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl163,022,625 - 3,024,286 (-)Ensemblhg38GRCh38
GRCh37163,072,621 - 3,074,287 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 36163,012,627 - 3,014,288 (-)NCBIBuild 36Build 36hg18NCBI36
Build 34163,012,626 - 3,014,288NCBI
Celera163,278,182 - 3,279,843 (-)NCBICelera
Cytogenetic Map16p13.3NCBI
HuRef163,044,200 - 3,045,861 (-)NCBIHuRef
CHM1_1163,072,500 - 3,074,161 (-)NCBICHM1_1
T2T-CHM13v2.0163,049,192 - 3,050,858 (-)NCBIT2T-CHM13v2.0
Hcfc1r1
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391723,892,570 - 23,894,499 (+)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl1723,892,570 - 23,894,201 (+)EnsemblGRCm39 EnsemblGRCm39
GRCm381723,673,608 - 23,675,524 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1723,673,596 - 23,675,227 (+)Ensemblmm10GRCm38
MGSCv371723,810,575 - 23,812,491 (+)NCBIMGSCv37MGSCv37mm9NCBIm37
MGSCv361723,401,230 - 23,403,146 (+)NCBIMGSCv36mm8
Celera1724,179,814 - 24,181,730 (+)NCBICelera
Cytogenetic Map17A3.3NCBI
cM Map1711.98NCBI
Hcfc1r1
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_00495544214,318,071 - 14,319,549 (+)Ensembl
ChiLan1.0NW_00495544214,318,071 - 14,319,549 (+)NCBIChiLan1.0ChiLan1.0
HCFC1R1
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v2183,567,421 - 3,568,773 (-)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan1167,345,791 - 7,347,468 (-)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v0161,964,465 - 1,966,126 (-)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.1163,136,818 - 3,138,479 (-)NCBIPanPan1.1PanPan1.1panPan2
PanPan1.1 Ensembl163,136,818 - 3,138,484 (-)EnsemblpanPan2panpan1.1
HCFC1R1
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1638,164,215 - 38,165,921 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl638,164,275 - 38,165,672 (+)EnsemblcanFam3CanFam3.1
Dog10K_Boxer_Tasha639,404,731 - 39,406,464 (+)NCBIDog10K_Boxer_TashaDog10K_Boxer_Tasha
ROS_Cfam_1.0638,474,790 - 38,476,523 (+)NCBIROS_Cfam_1.0ROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl638,474,876 - 38,476,516 (+)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.1638,160,585 - 38,162,318 (+)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.0638,133,093 - 38,134,621 (+)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0638,608,848 - 38,610,582 (+)NCBIUU_Cfam_GSD_1.0UU_Cfam_GSD_1.0
Hcfc1r1
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_024409344105,560,509 - 105,561,906 (-)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_0049366941,147,196 - 1,148,986 (+)EnsemblSpeTri2.0 Ensembl
SpeTri2.0NW_0049366941,147,364 - 1,148,954 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
HCFC1R1
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl339,164,375 - 39,166,049 (+)EnsemblsusScr11Sscrofa11.1
Sscrofa11.1339,164,375 - 39,166,051 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.2340,533,919 - 40,535,465 (-)NCBISscrofa10.2Sscrofa10.2susScr3
HCFC1R1
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.152,765,934 - 2,767,593 (-)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl52,766,170 - 2,767,248 (-)EnsemblChlSab1.1 EnsemblchlSab2Vervet-AGM
Vero_WHO_p1.0NW_02366606828,064,804 - 28,066,463 (+)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Hcfc1r1
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_004624824766,772 - 767,800 (-)EnsemblHetGla_female_1.0 EnsemblhetGla2HetGla_female_1.0 Ensembl
HetGla 1.0NW_004624824766,548 - 768,058 (-)NCBIHetGla 1.0HetGla 1.0hetGla2
Hcfc1r1
(Rattus rattus - black rat)
Black Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Rrattus_CSIRO_v19980,578 - 982,202 (+)NCBIRrattus_CSIRO_v1

Variants

.
Variants in Hcfc1r1
14 total Variants
miRNA Target Status (No longer updated)

Predicted Target Of
Summary Value
Count of predictions:41
Count of miRNA genes:40
Interacting mature miRNAs:41
Transcripts:ENSRNOT00000004702
Prediction methods:Miranda, Rnahybrid
Result types:miRGate_prediction

The detailed report is available here: Full Report CSV TAB Printer

miRNA Target Status data imported from miRGate (http://mirgate.bioinfo.cnio.es/).
For more information about miRGate, see PMID:25858286 or access the full paper here.


QTLs in Region (GRCr8)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
2313095Bss62Bone structure and strength QTL 621.50.0001tibia size trait (VT:0100001)tibia midshaft cross-sectional area (CMO:0001717)10589381150893811Rat
631660Hcar1Hepatocarcinoma resistance QTL 13.40.0001liver integrity trait (VT:0010547)volume of individual liver tumorous lesion (CMO:0001078)10666111835509383Rat
8662860Vetf10Vascular elastic tissue fragility QTL 10artery integrity trait (VT:0010639)number of ruptures of the internal elastic lamina of the abdominal aorta and iliac arteries (CMO:0002562)10666092373950353Rat
2313066Bss63Bone structure and strength QTL 631.40.0001tibia strength trait (VT:1000284)bone polar moment of inertia (CMO:0001558)10589381150893811Rat
631554Bp133Blood pressure QTL 1330.005arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)10125055464349221Rat
2313064Bmd71Bone mineral density QTL 710.90.0001tibia mineral mass (VT:1000283)compact volumetric bone mineral density (CMO:0001730)10589381150893811Rat
1578761Stresp21Stress response QTL 213.3thymus mass (VT:0004954)thymus wet weight (CMO:0000855)10687714251877142Rat
2293680Bss40Bone structure and strength QTL 405.660.0001femur strength trait (VT:0010010)femur total energy absorbed before break (CMO:0001677)10135730538Rat
7387235Uae41Urinary albumin excretion QTL 415.260.1874urine albumin amount (VT:0002871)urine albumin excretion rate (CMO:0000757)10130004247Rat
2313104Bss61Bone structure and strength QTL 610.90.0001tibia area (VT:1000281)tibia midshaft cross-sectional area (CMO:0001717)10589381150893811Rat
61427Cia16Collagen induced arthritis QTL 163.2joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)10686461896620484Rat
10401803Kidm50Kidney mass QTL 50kidney mass (VT:0002707)both kidneys wet weight (CMO:0000085)1092219745922197Rat
2317754Glom25Glomerulus QTL 253.5urine protein amount (VT:0005160)urine protein level (CMO:0000591)10210370847103708Rat
2313081Bss64Bone structure and strength QTL 641.30.0001tibia strength trait (VT:1000284)tibia total energy absorbed before break (CMO:0001736)10589381150893811Rat
631828Alc5Alcohol consumption QTL 52.4consumption behavior trait (VT:0002069)ethanol drink intake rate (CMO:0001407)10117749933Rat
634327Hc4Hypercalciuria QTL 42.4urine calcium amount (VT:0002985)urine calcium excretion rate (CMO:0000763)10138832698Rat

Markers in Region
BI281199  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21012,706,630 - 12,706,795 (+)MAPPERmRatBN7.2
Rnor_6.01012,995,453 - 12,995,617NCBIRnor6.0
Rnor_5.01012,818,498 - 12,818,662UniSTSRnor5.0
RGSC_v3.41012,939,883 - 12,940,047UniSTSRGSC3.4
Celera1012,401,932 - 12,402,096UniSTS
Cytogenetic Map10q12UniSTS


Expression

RNA-SEQ Expression

alimentary part of gastrointestinal system
appendage
circulatory system
ectoderm
endocrine system
endoderm
exocrine system
hemolymphoid system
hepatobiliary system
integumental system
mesenchyme
mesoderm
musculoskeletal system
nervous system
renal system
reproductive system
respiratory system
sensory system
visual system
16 12 67 163 91 90 59 92 59 6 356 192 11 142 81 92 31 17 17

Sequence


Ensembl Acc Id: ENSRNOT00000004702   ⟹   ENSRNOP00000004702
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 Ensembl1013,209,558 - 13,211,443 (+)Ensembl
mRatBN7.2 Ensembl1012,705,077 - 12,706,850 (+)Ensembl
Rnor_6.0 Ensembl1012,994,683 - 12,995,457 (+)Ensembl
RefSeq Acc Id: NM_001100492   ⟹   NP_001093962
RefSeq Status: VALIDATED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81013,210,144 - 13,211,445 (+)NCBI
mRatBN7.21012,705,551 - 12,706,852 (+)NCBI
Rnor_6.01012,994,635 - 12,995,674 (+)NCBI
Rnor_5.01012,817,272 - 12,818,719 (+)NCBI
Celera1012,400,852 - 12,402,153 (+)NCBI
Sequence:
RefSeq Acc Id: NM_001185047   ⟹   NP_001171976
RefSeq Status: VALIDATED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81013,209,826 - 13,211,445 (+)NCBI
mRatBN7.21012,705,233 - 12,706,852 (+)NCBI
Rnor_6.01012,994,317 - 12,995,674 (+)NCBI
Rnor_5.01012,817,272 - 12,818,719 (+)NCBI
Celera1012,400,534 - 12,402,153 (+)NCBI
Sequence:
RefSeq Acc Id: XM_039085345   ⟹   XP_038941273
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81013,209,757 - 13,211,442 (+)NCBI
mRatBN7.21012,705,139 - 12,706,849 (+)NCBI
RefSeq Acc Id: XM_039085346   ⟹   XP_038941274
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81013,209,910 - 13,211,442 (+)NCBI
mRatBN7.21012,705,314 - 12,706,852 (+)NCBI
RefSeq Acc Id: NP_001171976   ⟸   NM_001185047
- UniProtKB: Q80V38 (UniProtKB/Swiss-Prot),   A6HCK7 (UniProtKB/TrEMBL),   A6HCK4 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: NP_001093962   ⟸   NM_001100492
- UniProtKB: Q80V38 (UniProtKB/Swiss-Prot),   A6HCK7 (UniProtKB/TrEMBL),   A6HCK4 (UniProtKB/TrEMBL)
- Sequence:
Ensembl Acc Id: ENSRNOP00000004702   ⟸   ENSRNOT00000004702
RefSeq Acc Id: XP_038941273   ⟸   XM_039085345
- Peptide Label: isoform X1
RefSeq Acc Id: XP_038941274   ⟸   XM_039085346
- Peptide Label: isoform X2
- UniProtKB: Q80V38 (UniProtKB/Swiss-Prot),   A6HCK7 (UniProtKB/TrEMBL),   A6HCK4 (UniProtKB/TrEMBL)

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-Q80V38-F1-model_v2 AlphaFold Q80V38 1-116 view protein structure

Transcriptome

eQTL   View at Phenogen
WGCNA   View at Phenogen
Tissue/Strain Expression   View at Phenogen

Promoters
RGD ID:13696992
Promoter ID:EPDNEW_R7516
Type:initiation region
Name:AABR07029198_1
SO ACC ID:SO:0000170
Source:EPDNEW (Eukaryotic Promoter Database, http://epd.vital-it.ch/)
Experiment Methods:Single-end sequencing.
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.01012,994,657 - 12,994,717EPDNEW

Additional Information

Database Acc Id Source(s)
AGR Gene RGD:727975 AgrOrtholog
BioCyc Gene G2FUF-25916 BioCyc
Ensembl Genes ENSRNOG00000003542 Ensembl
InterPro HCFC1R1 UniProtKB/Swiss-Prot
KEGG Report rno:287097 UniProtKB/Swiss-Prot
NCBI Gene 287097 ENTREZGENE
PANTHER HOST CELL FACTOR C1 REGULATOR 1 UniProtKB/Swiss-Prot
  PTHR16246 UniProtKB/Swiss-Prot
Pfam HPIP UniProtKB/Swiss-Prot
PhenoGen Hcfc1r1 PhenoGen
RatGTEx ENSRNOG00000003542 RatGTEx
UniProt A6HCK4 ENTREZGENE, UniProtKB/TrEMBL
  A6HCK7 ENTREZGENE, UniProtKB/TrEMBL
  A6HCK8_RAT UniProtKB/TrEMBL
  D3ZRN4_RAT UniProtKB/TrEMBL
  HPIP_RAT UniProtKB/Swiss-Prot, ENTREZGENE


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2016-03-29 Hcfc1r1  host cell factor C1 regulator 1  Hcfc1r1  host cell factor C1 regulator 1 (XPO1-dependent)  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2005-07-08 Hcfc1r1  host cell factor C1 regulator 1 (XPO1-dependent)  Hpip  HCF-1 beta-propeller interacting protein  Symbol and Name updated 1299863 APPROVED