Hcfc1 (host cell factor C1) - Rat Genome Database

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Gene: Hcfc1 (host cell factor C1) Chinchilla lanigera
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Symbol: Hcfc1
Name: host cell factor C1
RGD ID: 9034969
Description: ENCODES a protein that exhibits chromatin binding (ortholog); chromatin DNA binding (ortholog); DNA-binding transcription factor binding (ortholog); INVOLVED IN blastocyst hatching (ortholog); cellular response to organic cyclic compound (ortholog); negative regulation of transcription by RNA polymerase II (ortholog); PARTICIPATES IN histone modification pathway; ASSOCIATED WITH adrenoleukodystrophy (ortholog); autistic disorder (ortholog); autosomal hemophilia A (ortholog); FOUND IN axon (ortholog); cytoplasm (ortholog); dendrite (ortholog)
Type: protein-coding
RefSeq Status: MODEL
Previously known as: host cell factor 1; host cell factor C1 (VP16-accessory protein)
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_004955580616,477 - 635,597 (-)EnsemblChiLan1.0
ChiLan1.0NW_004955580616,477 - 636,849 (-)NCBIChiLan1.0ChiLan1.0
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene Ontology Annotations     Click to see Annotation Detail View

Cellular Component

Molecular Pathway Annotations     Click to see Annotation Detail View
References

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


Genomics

Comparative Map Data
Hcfc1
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_004955580616,477 - 635,597 (-)EnsemblChiLan1.0
ChiLan1.0NW_004955580616,477 - 636,849 (-)NCBIChiLan1.0ChiLan1.0
HCFC1
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38X153,947,557 - 153,971,818 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 EnsemblX153,947,557 - 153,971,818 (-)EnsemblGRCh38hg38GRCh38
GRCh37X153,213,008 - 153,237,269 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 36X152,866,202 - 152,890,013 (-)NCBINCBI36Build 36hg18NCBI36
Build 34X152,733,854 - 152,751,024NCBI
CeleraX153,446,719 - 153,470,530 (-)NCBICelera
Cytogenetic MapXq28NCBI
HuRefX141,865,579 - 141,889,655 (-)NCBIHuRef
CHM1_1X153,087,420 - 153,111,232 (-)NCBICHM1_1
T2T-CHM13v2.0X152,221,276 - 152,245,538 (-)NCBIT2T-CHM13v2.0
Hcfc1
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39X72,986,400 - 73,011,430 (-)NCBIGRCm39GRCm39mm39
GRCm39 EnsemblX72,986,398 - 73,009,963 (-)EnsemblGRCm39 Ensembl
GRCm38X73,942,792 - 73,966,995 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 EnsemblX73,942,792 - 73,966,357 (-)EnsemblGRCm38mm10GRCm38
MGSCv37X71,188,134 - 71,211,654 (-)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv36X70,195,515 - 70,219,035 (-)NCBIMGSCv36mm8
CeleraX65,195,177 - 65,218,707 (-)NCBICelera
Cytogenetic MapXA7.3NCBI
cM MapX37.52NCBI
Hcfc1
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr8X156,839,100 - 156,864,132 (-)NCBIGRCr8
mRatBN7.2X151,687,779 - 151,712,688 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 EnsemblX151,687,779 - 151,712,638 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_UtxX153,828,944 - 153,853,809 (-)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0X157,392,162 - 157,417,027 (-)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0X155,063,993 - 155,088,858 (-)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.0X156,812,012 - 156,837,227 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 EnsemblX156,812,064 - 156,837,227 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01152,560,125 - 152,585,295 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4X159,875,671 - 159,900,536 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
Celera1136,179,593 - 136,204,387 (+)NCBICelera
Cytogenetic MapXq37NCBI
HCFC1
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v2X153,992,138 - 154,016,706 (-)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan1X153,995,743 - 154,020,048 (-)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v0X143,502,159 - 143,526,418 (-)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.1X153,389,853 - 153,412,997 (-)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 EnsemblX153,389,859 - 153,412,999 (-)Ensemblpanpan1.1panPan2
HCFC1
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1X121,790,585 - 121,815,395 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 EnsemblX121,791,660 - 121,814,715 (-)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_TashaX107,119,345 - 107,144,129 (-)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.0X124,931,866 - 124,956,652 (-)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 EnsemblX124,931,873 - 124,956,565 (-)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.1X120,701,137 - 120,725,917 (-)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.0X123,216,537 - 123,241,305 (-)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0X122,977,879 - 123,002,669 (-)NCBIUU_Cfam_GSD_1.0
Hcfc1
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2X119,089,236 - 119,116,163 (-)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_004936809827,031 - 853,644 (-)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_004936809827,008 - 853,689 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
HCFC1
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 EnsemblX124,673,128 - 124,694,152 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.1X124,673,125 - 124,694,846 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.2X142,237,954 - 142,259,562 (-)NCBISscrofa10.2Sscrofa10.2susScr3
HCFC1
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1X128,371,518 - 128,395,920 (-)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 EnsemblX128,371,517 - 128,394,861 (-)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_02366606566,242,868 - 66,267,283 (-)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Hcfc1
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_004624946571,774 - 590,247 (-)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_004624946571,776 - 591,543 (-)NCBIHetGla_female_1.0HetGla 1.0hetGla2


Expression

RNA-SEQ Expression


Sequence


Ensembl Acc Id: ENSCLAT00000005994   ⟹   ENSCLAP00000005893
Type: CODING
Position:
Chinchilla AssemblyChrPosition (strand)Source
ChiLan1.0 EnsemblNW_004955580616,477 - 635,597 (-)Ensembl
Ensembl Acc Id: ENSCLAT00000005995   ⟹   ENSCLAP00000005894
Type: CODING
Position:
Chinchilla AssemblyChrPosition (strand)Source
ChiLan1.0 EnsemblNW_004955580617,987 - 635,597 (-)Ensembl
RefSeq Acc Id: XM_005414175   ⟹   XP_005414232
Type: CODING
Position:
Chinchilla AssemblyChrPosition (strand)Source
ChiLan1.0NW_004955580616,477 - 636,849 (-)NCBI
Sequence:
Protein Sequences
Protein RefSeqs XP_005414232 (Get FASTA)   NCBI Sequence Viewer  
Ensembl Protein ENSCLAP00000005893
  ENSCLAP00000005893.1
  ENSCLAP00000005894.1
RefSeq Acc Id: XP_005414232   ⟸   XM_005414175
- UniProtKB: A0A8C2V0M1 (UniProtKB/TrEMBL)
- Sequence:
Ensembl Acc Id: ENSCLAP00000005894   ⟸   ENSCLAT00000005995
Ensembl Acc Id: ENSCLAP00000005893   ⟸   ENSCLAT00000005994
Protein Domains
Fibronectin type-III


Additional Information

Database Acc Id Source(s)
Ensembl Genes ENSCLAG00000004175 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSCLAT00000005994 ENTREZGENE
  ENSCLAT00000005994.1 UniProtKB/TrEMBL
  ENSCLAT00000005995.1 UniProtKB/TrEMBL
Gene3D-CATH 2.120.10.80 UniProtKB/TrEMBL
  2.60.40.10 UniProtKB/TrEMBL
  6.10.250.2590 UniProtKB/TrEMBL
InterPro FN3_dom UniProtKB/TrEMBL
  FN3_sf UniProtKB/TrEMBL
  HCF1/2 UniProtKB/TrEMBL
  Ig-like_fold UniProtKB/TrEMBL
  Kelch-typ_b-propeller UniProtKB/TrEMBL
  Kelch_1 UniProtKB/TrEMBL
NCBI Gene Hcfc1 ENTREZGENE
PANTHER PTHR46003 UniProtKB/TrEMBL
  PTHR46003:SF3 UniProtKB/TrEMBL
Pfam Kelch_1 UniProtKB/TrEMBL
  Kelch_3 UniProtKB/TrEMBL
  Kelch_5 UniProtKB/TrEMBL
PROSITE FN3 UniProtKB/TrEMBL
SMART FN3 UniProtKB/TrEMBL
Superfamily-SCOP SSF117281 UniProtKB/TrEMBL
  SSF49265 UniProtKB/TrEMBL
UniProt A0A8C2UUZ9_CHILA UniProtKB/TrEMBL
  A0A8C2V0M1 ENTREZGENE, UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2015-08-25 Hcfc1  host cell factor C1    host cell factor C1 (VP16-accessory protein)  Symbol and/or name change 5135510 APPROVED