HCFC1 (host cell factor C1) - Rat Genome Database

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Gene: HCFC1 (host cell factor C1) Chlorocebus sabaeus
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Symbol: HCFC1
Name: host cell factor C1
RGD ID: 18575486
Description: ENCODES a protein that exhibits chromatin DNA binding (ortholog); RNA polymerase II cis-regulatory region sequence-specific DNA 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); Barth syndrome (ortholog); FOUND IN axon (ortholog); dendrite (ortholog); MLL1 complex (ortholog)
Type: protein-coding
RefSeq Status: MODEL
Previously known as: host cell factor 1
RGD Orthologs
Human
Mouse
Rat
Chinchilla
Bonobo
Dog
Squirrel
Pig
Naked Mole-Rat
Alliance Genes
More Info more info ...
Latest Assembly: ChlSab1.1 - Green Monkey 1.1 Assembly
Position:
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
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
Additional References at PubMed
PMID:22301074   PMID:30032202  


Genomics

Comparative Map Data
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
(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
(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
(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
(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
High: > 1000 TPM value   Medium: Between 11 and 1000 TPM
Low: Between 0.5 and 10 TPM   Below Cutoff: < 0.5 TPM

endocrine system hemolymphoid system nervous system
High
Medium 36 39
Low 20 21
Below cutoff

Sequence


Reference Sequences
RefSeq Acc Id: ENSCSAT00000004853   ⟹   ENSCSAP00000003094
Type: CODING
Position:
Green Monkey AssemblyChrPosition (strand)Source
ChlSab1.1 EnsemblX128,371,517 - 128,394,861 (-)Ensembl
RefSeq Acc Id: XM_037988821   ⟹   XP_037844749
Type: CODING
Position:
Green Monkey AssemblyChrPosition (strand)Source
Vero_WHO_p1.0NW_02366606566,242,868 - 66,267,282 (-)NCBI
RefSeq Acc Id: XM_037988822   ⟹   XP_037844750
Type: CODING
Position:
Green Monkey AssemblyChrPosition (strand)Source
Vero_WHO_p1.0NW_02366606566,242,868 - 66,267,280 (-)NCBI
RefSeq Acc Id: XM_037988823   ⟹   XP_037844751
Type: CODING
Position:
Green Monkey AssemblyChrPosition (strand)Source
Vero_WHO_p1.0NW_02366606566,242,868 - 66,267,283 (-)NCBI
RefSeq Acc Id: XM_037988824   ⟹   XP_037844752
Type: CODING
Position:
Green Monkey AssemblyChrPosition (strand)Source
Vero_WHO_p1.0NW_02366606566,242,868 - 66,267,280 (-)NCBI
RefSeq Acc Id: XM_037988825   ⟹   XP_037844753
Type: CODING
Position:
Green Monkey AssemblyChrPosition (strand)Source
Vero_WHO_p1.0NW_02366606566,242,868 - 66,267,279 (-)NCBI
RefSeq Acc Id: XM_037988826   ⟹   XP_037844754
Type: CODING
Position:
Green Monkey AssemblyChrPosition (strand)Source
Vero_WHO_p1.0NW_02366606566,242,868 - 66,267,280 (-)NCBI
RefSeq Acc Id: XM_037988827   ⟹   XP_037844755
Type: CODING
Position:
Green Monkey AssemblyChrPosition (strand)Source
Vero_WHO_p1.0NW_02366606566,242,868 - 66,267,278 (-)NCBI
RefSeq Acc Id: XM_037988828   ⟹   XP_037844756
Type: CODING
Position:
Green Monkey AssemblyChrPosition (strand)Source
Vero_WHO_p1.0NW_02366606566,242,868 - 66,267,277 (-)NCBI
RefSeq Acc Id: XM_037988829   ⟹   XP_037844757
Type: CODING
Position:
Green Monkey AssemblyChrPosition (strand)Source
Vero_WHO_p1.0NW_02366606566,242,868 - 66,267,282 (-)NCBI
Reference Protein Sequences
RefSeq Acc Id: ENSCSAP00000003094   ⟸   ENSCSAT00000004853
RefSeq Acc Id: XP_037844751   ⟸   XM_037988823
- Peptide Label: isoform X3
RefSeq Acc Id: XP_037844749   ⟸   XM_037988821
- Peptide Label: isoform X1
RefSeq Acc Id: XP_037844757   ⟸   XM_037988829
- Peptide Label: isoform X9
RefSeq Acc Id: XP_037844754   ⟸   XM_037988826
- Peptide Label: isoform X6
RefSeq Acc Id: XP_037844750   ⟸   XM_037988822
- Peptide Label: isoform X2
RefSeq Acc Id: XP_037844752   ⟸   XM_037988824
- Peptide Label: isoform X4
RefSeq Acc Id: XP_037844753   ⟸   XM_037988825
- Peptide Label: isoform X5
RefSeq Acc Id: XP_037844755   ⟸   XM_037988827
- Peptide Label: isoform X7
RefSeq Acc Id: XP_037844756   ⟸   XM_037988828
- Peptide Label: isoform X8
- UniProtKB: A0A0D9R3A5 (UniProtKB/TrEMBL)


Additional Information

Database Acc Id Source(s)
Ensembl Genes ENSCSAG00000006809 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSCSAT00000004853.1 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 A0A0D9R3A5 ENTREZGENE, UniProtKB/TrEMBL