Hcfc1 host cell factor C1 [Rattus norvegicus (Norway rat)] - Gene

Summary

Symbol: Hcfc1provided by RGD
Full Name: host cell factor C1provided by RGD
Primary source: RGD:1563804
See related: EnsemblRapid:ENSRNOG00000051948 AllianceGenome:RGD:1563804
Gene type: protein coding
RefSeq status: VALIDATED
Organism: Rattus norvegicus
Lineage: Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Rattus
Also known as: HCF; HCF-1; RGD1563804
Summary: Predicted to enable several functions, including DNA binding activity; identical protein binding activity; and transcription coactivator activity. Involved in cellular response to organic cyclic compound; positive regulation of insulin secretion involved in cellular response to glucose stimulus; and regulation of transcription by RNA polymerase II. Located in axon; dendrite; and nuclear chromosome. Human ortholog(s) of this gene implicated in methylmalonic acidemia and homocysteinemia cblX type. Orthologous to human HCFC1 (host cell factor C1). [provided by Alliance of Genome Resources, Nov 2024]
Expression: Biased expression in Thymus (RPKM 140.5), Spleen (RPKM 110.8) and 9 other tissues See more
Orthologs: human mouse all
NEW: Try the new Gene table
Try the new Transcript table

Genomic context

Location:: Xq37

Exon count:: 26

Annotation release	Status	Assembly	Chr	Location
RS_2024_02	current	GRCr8 (GCF_036323735.1)	X	NC_086039.1 (156839100..156864132, complement)
RS_2023_06	previous assembly	mRatBN7.2 (GCF_015227675.2)	X	NC_051356.1 (151687779..151712688, complement)
106	previous assembly	Rnor_6.0 (GCF_000001895.5)	X	NC_005120.4 (156812012..156837227)

Chromosome X - NC_086039.1 Genomic Context describing neighboring genes

Genomic regions, transcripts, and products

Go to the top of the page Help

Go to reference sequence details

Genomic Sequence:

Go to nucleotide: Graphics FASTA GenBank

Expression

Go to the top of the page Help

See details

Project title: A rat RNA-Seq transcriptomic BodyMap across 11 organs and 4 developmental stages
Description: 320 RNA samples isolated from 11 organs (adrenal gland, brain, heart, kidney, liver, lung, muscle, spleen, thymus, and testes or uterus) from both sexes of Fischer 344 rats across four developmental stages (2-, 6-, 21-, and 104-weeks-old)
BioProject: PRJNA238328
Publication: PMID 24510058
Analysis date: Mon Jun 6 17:44:12 2016

Bibliography

Go to the top of the page Help

GeneRIFs: Gene References Into Functions

What's a GeneRIF?

Submit: New GeneRIF Correction

Interactions

Go to the top of the page Help

Products	Interactant	Other Gene	Complex	Source	Pubs	Description

General gene information

Go to the top of the page Help

Markers

U53925 (e-PCR)
- UniSTS:125773

RH128039 (e-PCR)
- UniSTS:211347

REN88306 (e-PCR)
- UniSTS:413104

REN88319 (e-PCR)
- UniSTS:413117

Gene Ontology Provided by RGD

Function	Evidence Code	Pubs
enables DNA-binding transcription factor binding	IEA Inferred from Electronic Annotation more info
enables DNA-binding transcription factor binding	ISO Inferred from Sequence Orthology more info
enables RNA polymerase II cis-regulatory region sequence-specific DNA binding	ISO Inferred from Sequence Orthology more info
enables chromatin DNA binding	ISO Inferred from Sequence Orthology more info
enables chromatin binding	IEA Inferred from Electronic Annotation more info
enables chromatin binding	ISO Inferred from Sequence Orthology more info
enables identical protein binding	IEA Inferred from Electronic Annotation more info
enables identical protein binding	ISO Inferred from Sequence Orthology more info
enables protein-macromolecule adaptor activity	ISO Inferred from Sequence Orthology more info
enables transcription coactivator activity	IBA Inferred from Biological aspect of Ancestor more info
enables transcription coactivator activity	IEA Inferred from Electronic Annotation more info
enables transcription coactivator activity	ISO Inferred from Sequence Orthology more info

Process	Evidence Code	Pubs
acts_upstream_of_or_within blastocyst hatching	ISO Inferred from Sequence Orthology more info
involved_in cellular response to organic cyclic compound	IEP Inferred from Expression Pattern more info	PubMed
involved_in chromatin remodeling	IBA Inferred from Biological aspect of Ancestor more info
involved_in negative regulation of transcription by RNA polymerase II	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in positive regulation of DNA-templated transcription	ISO Inferred from Sequence Orthology more info
involved_in positive regulation of gene expression	IEA Inferred from Electronic Annotation more info
involved_in positive regulation of gene expression	ISO Inferred from Sequence Orthology more info
involved_in positive regulation of insulin secretion involved in cellular response to glucose stimulus	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in positive regulation of transcription by RNA polymerase II	IEA Inferred from Electronic Annotation more info
involved_in positive regulation of transcription by RNA polymerase II	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in positive regulation of transcription by RNA polymerase II	ISO Inferred from Sequence Orthology more info
involved_in protein stabilization	IEA Inferred from Electronic Annotation more info
involved_in protein stabilization	ISO Inferred from Sequence Orthology more info
involved_in regulation of DNA-templated transcription	IBA Inferred from Biological aspect of Ancestor more info
involved_in regulation of DNA-templated transcription	ISO Inferred from Sequence Orthology more info
involved_in regulation of protein-containing complex assembly	IEA Inferred from Electronic Annotation more info
involved_in regulation of protein-containing complex assembly	ISO Inferred from Sequence Orthology more info
involved_in release from viral latency	ISO Inferred from Sequence Orthology more info

Component	Evidence Code	Pubs
part_of MLL1 complex	IEA Inferred from Electronic Annotation more info
part_of MLL1 complex	ISO Inferred from Sequence Orthology more info
part_of MLL1/2 complex	ISO Inferred from Sequence Orthology more info
part_of NSL complex	IEA Inferred from Electronic Annotation more info
part_of NSL complex	ISO Inferred from Sequence Orthology more info
part_of Set1C/COMPASS complex	IEA Inferred from Electronic Annotation more info
part_of Set1C/COMPASS complex	ISO Inferred from Sequence Orthology more info
located_in axon	IDA Inferred from Direct Assay more info	PubMed
located_in cytoplasm	IEA Inferred from Electronic Annotation more info
located_in cytoplasm	ISO Inferred from Sequence Orthology more info
located_in dendrite	IDA Inferred from Direct Assay more info	PubMed
part_of histone acetyltransferase complex	ISO Inferred from Sequence Orthology more info
part_of histone methyltransferase complex	IBA Inferred from Biological aspect of Ancestor more info
located_in neuronal cell body	IEA Inferred from Electronic Annotation more info
located_in neuronal cell body	ISO Inferred from Sequence Orthology more info
located_in nuclear chromosome	IDA Inferred from Direct Assay more info	PubMed
located_in nucleoplasm	ISO Inferred from Sequence Orthology more info
located_in nucleus	IEA Inferred from Electronic Annotation more info
located_in nucleus	ISO Inferred from Sequence Orthology more info
part_of protein-containing complex	ISO Inferred from Sequence Orthology more info

General protein information

Go to the top of the page Help

Preferred Names: host cell factor 1

Names: C1 factor; host cell factor 1-like

NCBI Reference Sequences (RefSeq)

Go to the top of the page Help

NEW Try the new Transcript table

RefSeqs maintained independently of Annotated Genomes

These reference sequences exist independently of genome builds. Explain

These reference sequences are curated independently of the genome annotation cycle, so their versions may not match the RefSeq versions in the current genome build. Identify version mismatches by comparing the version of the RefSeq in this section to the one reported in Genomic regions, transcripts, and products above.

mRNA and Protein(s)

NM_001414734.2 → NP_001401663.1 host cell factor 1

Status: VALIDATED

Source sequence(s)

JAXUCZ010000021

UniProtKB/TrEMBL

A6KRT1

Related

ENSRNOP00000081395.2, ENSRNOT00000112258.2

RefSeqs of Annotated Genomes: GCF_036323735.1-RS_2024_02

The following sections contain reference sequences that belong to a specific genome build. Explain

Reference GRCr8

Genomic

NC_086039.1 Reference GRCr8

Range

156839100..156864132 complement

Download

GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

XM_006229596.5 → XP_006229658.1 host cell factor 1 isoform X3

UniProtKB/Swiss-Prot

D3ZN95

Conserved Domains (6) summary

PLN02153
Location:12 → 330

PLN02153; epithiospecifier protein

cd00063
Location:1868 → 1897

FN3; Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all ...

sd00038
Location:200 → 253

Kelch; KELCH repeat [structural motif]

pfam01344
Location:32 → 69

Kelch_1; Kelch motif

pfam13415
Location:215 → 263

Kelch_3; Galactose oxidase, central domain

pfam13854
Location:134 → 179

Kelch_5; Kelch motif
XM_006229594.5 → XP_006229656.1 host cell factor 1 isoform X2

UniProtKB/Swiss-Prot

D3ZN95

Conserved Domains (6) summary

PLN02153
Location:12 → 330

PLN02153; epithiospecifier protein

cd00063
Location:1911 → 1940

FN3; Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all ...

sd00038
Location:200 → 253

Kelch; KELCH repeat [structural motif]

pfam01344
Location:32 → 69

Kelch_1; Kelch motif

pfam13415
Location:215 → 263

Kelch_3; Galactose oxidase, central domain

pfam13854
Location:134 → 179

Kelch_5; Kelch motif
XM_006229593.5 → XP_006229655.1 host cell factor 1 isoform X1

UniProtKB/Swiss-Prot

D3ZN95

UniProtKB/TrEMBL

A0A8I5ZS53

Related

ENSRNOP00000084541.2, ENSRNOT00000113938.2

Conserved Domains (6) summary

PLN02153
Location:12 → 330

PLN02153; epithiospecifier protein

cd00063
Location:1912 → 1941

FN3; Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all ...

sd00038
Location:200 → 253

Kelch; KELCH repeat [structural motif]

pfam01344
Location:32 → 69

Kelch_1; Kelch motif

pfam13415
Location:215 → 263

Kelch_3; Galactose oxidase, central domain

pfam13854
Location:134 → 179

Kelch_5; Kelch motif

Suppressed Reference Sequence(s)

The following Reference Sequences have been suppressed. Explain

NM_001139507.2: Suppressed sequence

Description

NM_001139507.2: This RefSeq was removed because currently there is insufficient support for the transcript and the protein.