H3C4 (H3 clustered histone 4) - Rat Genome Database

Name: H3C4
Creator: Rat Genome Database
License: Creative Commons CC BY 4.0
Keywords: Rat Gene RGD Genome

Gene: H3C4 (H3 clustered histone 4) Sus scrofa

Analyze

Symbol:

H3C4

Name:

H3 clustered histone 4

RGD ID:

14071302

Description:

ENCODES a protein that exhibits DNA binding (inferred); protein heterodimerization activity (inferred); structural constituent of chromatin (inferred); INVOLVED IN epigenetic regulation of gene expression (ortholog); gene expression (ortholog); nucleosome assembly (ortholog); ASSOCIATED WITH genetic disease (ortholog); FOUND IN nucleoplasm (ortholog); nucleosome (ortholog); protein-containing complex (ortholog)

Type:

protein-coding

RefSeq Status:

PROVISIONAL

Previously known as:

HIST1H3E; histone cluster 1, H3e; histone H3.1

RGD Orthologs

Human

Dog

Green Monkey

Alliance Genes

More Info

more info ...

Latest Assembly:

Sscrofa11.1 - Pig Sscrofa11.1 Assembly

NCBI Annotation Information:

Annotation category: partial on reference assembly

Position:

Pig Assembly	Chr	Position (strand)	Source	Genome Browsers
Pig Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
Sscrofa11.1 Ensembl	7	20,853,958 - 20,855,172 (-)	Ensembl	Sscrofa11.1		susScr11	Sscrofa11.1
Sscrofa11.1	7	20,853,945 - 20,855,172 (-)	NCBI	Sscrofa11.1	Sscrofa11.1	susScr11	Sscrofa11.1
Sscrofa10.2	7	23,085,802 - 23,089,451 (-)	NCBI	Sscrofa10.2	Sscrofa10.2	susScr3

JBrowse:

View Region in Genome Browser (JBrowse)

Model

Annotation Click to see Annotation Detail View

Disease Annotations Click to see Annotation Detail View

genetic disease (ISO)

Gene Ontology Annotations Click to see Annotation Detail View

Biological Process

epigenetic regulation of gene expression (ISO)

gene expression (ISO)

nucleosome assembly (ISO)

Cellular Component

chromosome (IEA)

nucleoplasm (ISO)

nucleosome (IEA,ISO)

nucleus (IEA)

protein-containing complex (ISO)

Molecular Function

DNA binding (IEA)

protein binding (ISO)

protein heterodimerization activity (IEA)

structural constituent of chromatin (IEA)

References

Additional References at PubMed

PMID:14681463	PMID:22301074	PMID:30032202

Genomics

Comparative Map Data

H3C4
(Sus scrofa - pig)

Pig Assembly	Chr	Position (strand)	Source	Genome Browsers
Pig Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
Sscrofa11.1 Ensembl	7	20,853,958 - 20,855,172 (-)	Ensembl	Sscrofa11.1		susScr11	Sscrofa11.1
Sscrofa11.1	7	20,853,945 - 20,855,172 (-)	NCBI	Sscrofa11.1	Sscrofa11.1	susScr11	Sscrofa11.1
Sscrofa10.2	7	23,085,802 - 23,089,451 (-)	NCBI	Sscrofa10.2	Sscrofa10.2	susScr3

H3C8
(Homo sapiens - human)

Human Assembly	Chr	Position (strand)	Source	Genome Browsers
Human Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCh38	6	26,270,918 - 26,271,413 (-)	NCBI	GRCh38	GRCh38	hg38	GRCh38
GRCh38.p14 Ensembl	6	26,270,918 - 26,271,413 (-)	Ensembl	GRCh38		hg38	GRCh38
GRCh37	6	26,271,146 - 26,271,641 (-)	NCBI	GRCh37	GRCh37	hg19	GRCh37
Build 36	6	26,379,125 - 26,379,591 (-)	NCBI	NCBI36	Build 36	hg18	NCBI36
Build 34	6	26,379,124 - 26,379,591	NCBI
Celera	6	27,500,453 - 27,500,919 (-)	NCBI		Celera
Cytogenetic Map	6	p22.2	NCBI
HuRef	6	26,214,152 - 26,214,618 (-)	NCBI		HuRef
CHM1_1	6	26,273,306 - 26,273,772 (-)	NCBI		CHM1_1
T2T-CHM13v2.0	6	26,139,377 - 26,139,872 (-)	NCBI		T2T-CHM13v2.0

H3C12
(Canis lupus familiaris - dog)

Dog Assembly	Chr	Position (strand)	Source	Genome Browsers
Dog Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
CanFam3.1	35	25,058,040 - 25,060,132 (-)	NCBI	CanFam3.1	CanFam3.1	canFam3	CanFam3.1
CanFam3.1 Ensembl	35	25,059,288 - 25,059,698 (-)	Ensembl	CanFam3.1		canFam3	CanFam3.1
Dog10K_Boxer_Tasha	35	24,914,464 - 24,915,474 (-)	NCBI		Dog10K_Boxer_Tasha
ROS_Cfam_1.0	35	25,247,408 - 25,249,413 (-)	NCBI		ROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl	35	25,248,685 - 25,249,095 (-)	Ensembl		ROS_Cfam_1.0 Ensembl
ROS_Cfam_1.0 Ensembl	35	25,191,411 - 25,191,821 (+)	Ensembl		ROS_Cfam_1.0 Ensembl
ROS_Cfam_1.0 Ensembl	35	24,092,143 - 24,092,553 (+)	Ensembl		ROS_Cfam_1.0 Ensembl
ROS_Cfam_1.0 Ensembl	35	24,362,632 - 24,363,042 (-)	Ensembl		ROS_Cfam_1.0 Ensembl
ROS_Cfam_1.0 Ensembl	35	24,104,442 - 24,104,895 (-)	Ensembl		ROS_Cfam_1.0 Ensembl
ROS_Cfam_1.0 Ensembl	35	25,239,438 - 25,239,868 (-)	Ensembl		ROS_Cfam_1.0 Ensembl
ROS_Cfam_1.0 Ensembl	35	24,329,260 - 24,329,760 (+)	Ensembl		ROS_Cfam_1.0 Ensembl
ROS_Cfam_1.0 Ensembl	35	24,118,193 - 24,118,603 (+)	Ensembl		ROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.1	35	25,022,168 - 25,024,173 (-)	NCBI		UMICH_Zoey_3.1
UNSW_CanFamBas_1.0	35	25,075,531 - 25,077,536 (-)	NCBI		UNSW_CanFamBas_1.0

LOC103221995
(Chlorocebus sabaeus - green monkey)

Green Monkey Assembly	Chr	Position (strand)	Source	Genome Browsers
Green Monkey Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
ChlSab1.1	17	45,985,576 - 45,987,645 (+)	NCBI	ChlSab1.1	ChlSab1.1	chlSab2
Vero_WHO_p1.0	NW_023666044	26,200,234 - 26,202,258 (-)	NCBI	Vero_WHO_p1.0	Vero_WHO_p1.0

Variants

Variants in H3C4
30 total Variants

Expression

Sequence

Nucleotide Sequences


RefSeq Transcripts	NM_001287416	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
GenBank Nucleotide	AEMK02000051	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	AK235118	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	CU041316	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	HQ630066	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles

RefSeq Acc Id:

ENSSSCT00000103518 ⟹ ENSSSCP00000080830

Type:

CODING

Position:

Pig Assembly	Chr	Position (strand)	Source
Sscrofa11.1 Ensembl	7	20,853,958 - 20,855,172 (-)	Ensembl

RefSeq Acc Id:

NM_001287416 ⟹ NP_001274345

RefSeq Status:

PROVISIONAL

Type:

CODING

Position:

Pig Assembly	Chr	Position (strand)	Source
Sscrofa11.1	7	20,853,945 - 20,855,172 (-)	NCBI

Sequence:

show sequence

TGAATTTAGCAGCCGATGACTAACAGGGAATGCCCACAATCCAATCAGAGTGATTCCGTCCTGT
ATAAATATAGGAGCAAGATTTCCGGACAAATCTCTTTATTTAGCTGAGAAGTCATGGCTCGTAC
CAAGCAGACCGCTCGCAAGTCCACCGGCGGCAAGGCGCCGCGCAAGCAGCTGGCCACCAAGGCG
GCCCGCAAGAGCGCGCCCGCCACCGGCGGCGTGAAGAAGCCGCACCGCTACCGGCCCGGCACGG
TGGCCCTGCGCGAGATCCGGCGCTACCAGAAGTCCACGGAGCTGCTGATCCGCAAGCTGCCGTT
CCAGCGGCTGGTGCGCGAGATCGCGCAGGACTTCAAGACGGACCTGCGCTTCCAGAGCTCGGCC
GTGATGGCGCTGCAGGAGGCGTGCGAGGCCTACCTGGTGGGGCTCTTCGAGGACACCAACCTGT
GCGCCATCCACGCCAAGCGCGTCACCATCATGCCCAAGGACATCCAGCTGGCTCGCCGCATCCG
CGGGGAGAGGGCGTAAAATGGCTCTTCTCGACTAAATGCCAACCTTAAACCCAAAGGCTCTTTT
CAGAGCCAACCATTTTTTCTACGAAAAATTGCTGTGTACTTCGATCTAGTTACTCGGGGAATAT
AGAAATGTACCCCTCCACCGCCGCCCCGCCCCGCCGTGTCCCTCTACAGGCTTTTTAAGAGCCT
TTAAAGTCCTCCGCCAGTCTTTCGGTTCCCTTTTTCGAGACTGCATTTTCTGGCTTGCCTGCTT
TTAGGGTTGGCTAGCTTGGGGTTATGAACTTTGGCTTTTGCTGGACCCTTGGCCACCTAATACG
GTTTGGCTATCTTTATCTTTTGGGTGCTATTGGGCACCTTCTTGGCCACGTAGCCGCTACTTGT
TTCTCTGCCCTCTGGAGGCTTAGCGGATTTTGGGGTGGGGGGAGAGGGTGCTGCTTGCGCCCGT
CTTCTTAGCTTTGGGCTTGCTTTCCCCTGTGGCCGCCTGGTTGAGTTTGAAAGCCTGAGGCGCC
AATGCCCTTGGTCTGCACCAAGGTGCCCTTACTCACCAGGCTCTGGAGACCGAGCTTGATGCGG
CTGTTCTCAAAGTCGTCGTCAGCTGCTGCCAGCGCCTTGAGGTCAGCCAGGGACACGCCGCTGC
TGCGCTCTTTGGAGGCGGATACAGCCTTGGTGTTAAGCTCCGACAGGGGGGCCTGGAAGTTTTG
TGGCGCCAGCGGGCTTGCGGGGCTTTTTCTTCACAGGAGTCTTTTATGGAGAAGGAGCTGGAGG
GGCGGCAGACACAGGTTCCGACATGATTGTTGGCTTGAATAACTAACAGTACAGAAAAGAAAAA
AAAAAAAAAAAAAAAAAAAAAAAA

hide sequence

Protein Sequences


Protein RefSeqs	NP_001274345	(Get FASTA)	NCBI Sequence Viewer
GenBank Protein	AEI00724	(Get FASTA)	NCBI Sequence Viewer
Ensembl Protein	ENSSSCP00000075397.1
	ENSSSCP00000076483.1
	ENSSSCP00000080631.1
	ENSSSCP00000080818.1
	ENSSSCP00000080830
	ENSSSCP00000080830.1
	ENSSSCP00000080899.1
	ENSSSCP00005042258.1
	ENSSSCP00015031545.1
	ENSSSCP00015031933.1
	ENSSSCP00030030438.1
	ENSSSCP00030030978.1
	ENSSSCP00030031073.1
	ENSSSCP00035036178.1
	ENSSSCP00035044415.1
	ENSSSCP00035044490.1
	ENSSSCP00035045607.1
	ENSSSCP00040027917.1
	ENSSSCP00040027972.1
	ENSSSCP00045001928.1
	ENSSSCP00045002608.1
	ENSSSCP00045002672.1
	ENSSSCP00045017376.1
	ENSSSCP00050027973.1
	ENSSSCP00050027976.1
	ENSSSCP00050035819.1
	ENSSSCP00055016961.1
	ENSSSCP00060005833.1
	ENSSSCP00065007242.1
	ENSSSCP00065039760.1
	ENSSSCP00065039866.1
	ENSSSCP00065041050.1
	ENSSSCP00065041305.1
	ENSSSCP00070042077.1
	ENSSSCP00070042080.1

RefSeq Acc Id:	NP_001274345 ⟸ NM_001287416
- UniProtKB:	F1RVA0 (UniProtKB/TrEMBL), A0A4X1VKV5 (UniProtKB/TrEMBL), F2Z576 (UniProtKB/TrEMBL), A0A8D0LYL5 (UniProtKB/TrEMBL), A0A8D1D504 (UniProtKB/TrEMBL), A0A8D1GDQ1 (UniProtKB/TrEMBL), A0A8D1KDR5 (UniProtKB/TrEMBL), A0A8D1ZU81 (UniProtKB/TrEMBL)
- Sequence:	show sequence MARTKQTARKSTGGKAPRKQLATKAARKSAPATGGVKKPHRYRPGTVALREIRRYQKSTELLIR KLPFQRLVREIAQDFKTDLRFQSSAVMALQEACEAYLVGLFEDTNLCAIHAKRVTIMPKDIQLA RRIRGERA hide sequence

RefSeq Acc Id:

ENSSSCP00000080830 ⟸ ENSSSCT00000103518

Protein Domains

Histone H2A/H2B/H3

Additional Information

External Database Links

Database	Acc Id	Source(s)
Ensembl Genes	ENSSSCG00000036727	Ensembl
	ENSSSCG00000052704	UniProtKB/TrEMBL
	ENSSSCG00000053072	UniProtKB/TrEMBL
	ENSSSCG00000056496	Ensembl, ENTREZGENE, UniProtKB/TrEMBL
	ENSSSCG00000059210	UniProtKB/TrEMBL
	ENSSSCG00000060961	UniProtKB/TrEMBL
	ENSSSCG00000061876	UniProtKB/TrEMBL
	ENSSSCG00005042408	UniProtKB/TrEMBL
	ENSSSCG00015058538	UniProtKB/TrEMBL
	ENSSSCG00015059181	UniProtKB/TrEMBL
	ENSSSCG00030047582	UniProtKB/TrEMBL
	ENSSSCG00030048468	UniProtKB/TrEMBL
	ENSSSCG00030048611	UniProtKB/TrEMBL
	ENSSSCG00035064480	UniProtKB/TrEMBL
	ENSSSCG00035076227	UniProtKB/TrEMBL
	ENSSSCG00035076322	UniProtKB/TrEMBL
	ENSSSCG00035077709	UniProtKB/TrEMBL
	ENSSSCG00040048860	UniProtKB/TrEMBL
	ENSSSCG00040048917	UniProtKB/TrEMBL
	ENSSSCG00045001968	UniProtKB/TrEMBL
	ENSSSCG00045002618	UniProtKB/TrEMBL
	ENSSSCG00045002697	UniProtKB/TrEMBL
	ENSSSCG00045014815	UniProtKB/TrEMBL
	ENSSSCG00050047664	UniProtKB/TrEMBL
	ENSSSCG00050061196	UniProtKB/TrEMBL
	ENSSSCG00055010908	UniProtKB/TrEMBL
	ENSSSCG00060011444	UniProtKB/TrEMBL
	ENSSSCG00065013356	UniProtKB/TrEMBL
	ENSSSCG00065066201	UniProtKB/TrEMBL
	ENSSSCG00065066334	UniProtKB/TrEMBL
	ENSSSCG00065068322	UniProtKB/TrEMBL
	ENSSSCG00065068823	UniProtKB/TrEMBL
	ENSSSCG00070024942	UniProtKB/TrEMBL
	ENSSSCG00070024945	UniProtKB/TrEMBL
Ensembl Transcript	ENSSSCT00000093155.1	UniProtKB/TrEMBL
	ENSSSCT00000093227.1	UniProtKB/TrEMBL
	ENSSSCT00000096945.1	UniProtKB/TrEMBL
	ENSSSCT00000097116.1	UniProtKB/TrEMBL
	ENSSSCT00000100037.1	UniProtKB/TrEMBL
	ENSSSCT00000103518	ENTREZGENE
	ENSSSCT00000103518.1	UniProtKB/TrEMBL
	ENSSSCT00005067987.1	UniProtKB/TrEMBL
	ENSSSCT00015078226.1	UniProtKB/TrEMBL
	ENSSSCT00015079120.1	UniProtKB/TrEMBL
	ENSSSCT00030066454.1	UniProtKB/TrEMBL
	ENSSSCT00030067674.1	UniProtKB/TrEMBL
	ENSSSCT00030067877.1	UniProtKB/TrEMBL
	ENSSSCT00035086788.1	UniProtKB/TrEMBL
	ENSSSCT00035103763.1	UniProtKB/TrEMBL
	ENSSSCT00035103928.1	UniProtKB/TrEMBL
	ENSSSCT00035106013.1	UniProtKB/TrEMBL
	ENSSSCT00040065856.1	UniProtKB/TrEMBL
	ENSSSCT00040065970.1	UniProtKB/TrEMBL
	ENSSSCT00045003058.1	UniProtKB/TrEMBL
	ENSSSCT00045004103.1	UniProtKB/TrEMBL
	ENSSSCT00045004210.1	UniProtKB/TrEMBL
	ENSSSCT00045025171.1	UniProtKB/TrEMBL
	ENSSSCT00050064933.1	UniProtKB/TrEMBL
	ENSSSCT00050064937.1	UniProtKB/TrEMBL
	ENSSSCT00050083402.1	UniProtKB/TrEMBL
	ENSSSCT00055021411.1	UniProtKB/TrEMBL
	ENSSSCT00060014954.1	UniProtKB/TrEMBL
	ENSSSCT00065017761.1	UniProtKB/TrEMBL
	ENSSSCT00065090854.1	UniProtKB/TrEMBL
	ENSSSCT00065091065.1	UniProtKB/TrEMBL
	ENSSSCT00065093810.1	UniProtKB/TrEMBL
	ENSSSCT00065094466.1	UniProtKB/TrEMBL
	ENSSSCT00070049825.1	UniProtKB/TrEMBL
	ENSSSCT00070049828.1	UniProtKB/TrEMBL
Gene3D-CATH	1.10.20.10	UniProtKB/TrEMBL
InterPro	Histone-fold	UniProtKB/TrEMBL
	Histone_H2A/H2B/H3	UniProtKB/TrEMBL
	Histone_H3/CENP-A	UniProtKB/TrEMBL
KEGG Report	ssc:100154511	UniProtKB/TrEMBL
	ssc:106504121	UniProtKB/TrEMBL
NCBI Gene	HIST1H3E	ENTREZGENE
PANTHER	HISTONE H3.1	UniProtKB/TrEMBL
	PTHR11426	UniProtKB/TrEMBL
Pfam	Histone	UniProtKB/TrEMBL
PRINTS	HISTONEH3	UniProtKB/TrEMBL
PROSITE	HISTONE_H3_1	UniProtKB/TrEMBL
	HISTONE_H3_2	UniProtKB/TrEMBL
SMART	SM00428	UniProtKB/TrEMBL
Superfamily-SCOP	SSF47113	UniProtKB/TrEMBL
UniProt	A0A4X1VKV5	ENTREZGENE, UniProtKB/TrEMBL
	A0A8D0LYL5	ENTREZGENE, UniProtKB/TrEMBL
	A0A8D1D504	ENTREZGENE, UniProtKB/TrEMBL
	A0A8D1GDQ1	ENTREZGENE, UniProtKB/TrEMBL
	A0A8D1KDR5	ENTREZGENE, UniProtKB/TrEMBL
	A0A8D1ZU81	ENTREZGENE, UniProtKB/TrEMBL
	F1RVA0	ENTREZGENE, UniProtKB/TrEMBL
	F2Z576	ENTREZGENE
UniProt Secondary	F2Z576	UniProtKB/TrEMBL
VGNC ID	VGNC:109839	ENTREZGENE

Nomenclature History

Date	Current Symbol	Current Name	Previous Symbol	Previous Name	Description	Reference	Status
2022-06-13	H3C4	H3 clustered histone 4	HIST1H3E	histone cluster 1, H3e	Symbol and/or name change	19259463	PROVISIONAL

Gene Annotator (Functional Annotation) unavailable	Gene Annotator (Annotation Distribution) unavailable	Variant Visualizer (Genomic Variants) unavailble Variant Visualizer (Genomic Variants) unavailable
Gene Annotator (Functional Annotation)	Gene Annotator (Annotation Distribution)	Variant Visualizer (Genomic Variants)

InterViewer (Protein-Protein Interactions) unavailable	Gviewer (Genome Viewer) unavailable	Variant Visualizer (Damaging Variants) unavailble Variant Visualizer (Damaging Variants) unavailable
InterViewer (Protein-Protein Interactions)	GViewer (Genome Viewer)	Variant Visualizer (Damaging Variants)

Gene Annotator (Annotation Comparison) unavailable	OLGA (Gene List Generator) unavailable
Gene Annotator (Annotation Comparison)	OLGA (Gene List Generator)	Excel (Download)

MOET (Multi-Ontology Enrichement) unavailable	GOLF (Gene-Ortholog Location Finder) unavailable
MOET (Multi-Ontology Enrichement)	GOLF (Gene-Ortholog Location Finder)

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