EuRBPDB

Basic Information
Cancer Related Information

Description

RBPome

Transcripts

Gene Model

Pathways

PPI

Orthologs

Gene Ontology

Description

Ensembl ID: ENSG00000270882 (Gene tree)
Gene ID: 8370
Gene Symbol: HIST2H4A
Alias: H4F2|H4FN|HIST2H4|H4/n
Full Name: histone cluster 2 H4 family member a
Gene Type: protein_coding
Species: Homo_sapiens
Status: putative
Strand: Plus strand
Length: 7,111 bases
Position: chr1:149,832,657-149,839,767
Accession: 4794
RBP type: non-canonical RBP
Summary: Histones are basic nuclear proteins that are responsible for the nucleosome structure of the chromosomal fiber in eukaryotes. This structure consists of approximately 146 bp of DNA wrapped around a nucleosome, an octamer composed of pairs of each of the four core histones (H2A, H2B, H3, and H4). The chromatin fiber is further compacted through the interaction of a linker histone, H1, with the DNA between the nucleosomes to form higher order chromatin structures. This gene is intronless and encodes a replication-dependent histone that is a member of the histone H4 family. Transcripts from this gene lack polyA tails; instead, they contain a palindromic termination element. This gene is found in a histone cluster on chromosome 1. This gene is one of four histone genes in the cluster that are duplicated; this record represents the centromeric copy. [provided by RefSeq, Aug 2015]

RNA binding proteome (RBPome)

PID	Title	Method	Time	Author	Doi
30607034	Comprehensive identification of RNA protein interactions in any organism using orthogonal organic phase separation (OOPS)	OOPS & HEK293	2019 Jan 3	Queiroz RML	DOI: 10.1038/s41587-018-0001-2
30607034	Comprehensive identification of RNA protein interactions in any organism using orthogonal organic phase separation (OOPS)	OOPS & MCF10A	2019 Jan 3	Queiroz RML	DOI: 10.1038/s41587-018-0001-2
30607034	Comprehensive identification of RNA protein interactions in any organism using orthogonal organic phase separation (OOPS)	OOPS & U2OS	2019 Jan 3	Queiroz RML	DOI: 10.1038/s41587-018-0001-2

Transcripts

Transcript ID	Name	Length	RefSeq ID	Protein ID	Length	RefSeq ID	UniportKB ID
ENST00000614272	HIST2H4A-203	942	-	ENSP00000478519	103 (aa)	-	P62805
ENST00000578186	HIST2H4A-201	583	-	ENSP00000462667	103 (aa)	-	P62805
ENST00000618193	HIST2H4A-204	1547	-	ENSP00000478786	103 (aa)	-	P62805
ENST00000613412	HIST2H4A-202	610	-	ENSP00000481343	103 (aa)	-	P62805

Gene Model

Click here to download ENSG00000270882's gene model file

Pathways

Pathway ID	Pathway Name	Source
hsa05034	Alcoholism	KEGG
hsa05203	Viral carcinogenesis	KEGG
hsa05322	Systemic lupus erythematosus	KEGG

Protein-Protein Interaction (PPI)

Clik here to download ENSG00000270882's network

* RBP PPI network refers to all genes directly bind to RBP

Orthologs identified by RBPome

Ensembl ID	Gene Symbol	Coverage	Identiy	Ortholog	Gene Symbol	Coverage	Identiy	Species
ENSG00000270882	HIST2H4A	100	99.029	WBGene00001941	his-67	100	99.029	Caenorhabditis_elegans
ENSG00000270882	HIST2H4A	100	100.000	ENSG00000276180	HIST1H4I	100	100.000	Homo_sapiens
ENSG00000270882	HIST2H4A	100	100.000	ENSG00000278705	HIST1H4B	100	100.000	Homo_sapiens
ENSG00000270882	HIST2H4A	100	100.000	ENSG00000276966	HIST1H4E	100	100.000	Homo_sapiens
ENSG00000270882	HIST2H4A	100	100.000	ENSG00000275126	HIST1H4L	100	100.000	Homo_sapiens
ENSG00000270882	HIST2H4A	100	100.000	ENSG00000197061	HIST1H4C	100	100.000	Homo_sapiens
ENSG00000270882	HIST2H4A	100	100.000	ENSG00000197837	HIST4H4	100	100.000	Homo_sapiens
ENSG00000270882	HIST2H4A	100	100.000	ENSG00000274618	HIST1H4F	100	100.000	Homo_sapiens
ENSG00000270882	HIST2H4A	100	100.000	ENSG00000270276	HIST2H4B	100	100.000	Homo_sapiens
ENSG00000270882	HIST2H4A	100	92.233	YBR009C		100	92.233	Saccharomyces_cerevisiae

Gene Ontology

Go ID	Go_term	PubmedID	Evidence	Category
GO:0000183	chromatin silencing at rDNA	-	TAS	Process
GO:0000228	nuclear chromosome	14718166.	IDA	Component
GO:0000784	nuclear chromosome, telomeric region	19135898.	HDA	Component
GO:0000786	nucleosome	21636898.24699735.25615412.	IDA	Component
GO:0000786	nucleosome	3035717.	TAS	Component
GO:0000788	nuclear nucleosome	20498094.	IDA	Component
GO:0003677	DNA binding	21873635.	IBA	Function
GO:0003677	DNA binding	3035717.	TAS	Function
GO:0003723	RNA binding	22658674.22681889.	HDA	Function
GO:0005515	protein binding	9540062.10220385.14585971.15161933.15933069.16415788.16917504.17540172.18404153.18408754.18474616.18571423.19410544.19494831.19498464.19710015.19862764.20000738.20224553.20498094.20618440.20709061.20739937.20951943.21085121.21478274.21596426.21743476.21888893.21983900.22343720.22368283.22373579.22615379.23071334.23075851.23142979.23377543.23760478.23831576.24183680.24360279.24361270.24525235.24596249.24726341.25281266.25416956.25556234.25579814.25619998.25651062.25910212.26167883.26496610.26912361.30021884.	IPI	Function
GO:0005576	extracellular region	-	TAS	Component
GO:0005634	nucleus	21630459.	HDA	Component
GO:0005634	nucleus	14585971.	IDA	Component
GO:0005654	nucleoplasm	-	TAS	Component
GO:0006303	double-strand break repair via nonhomologous end joining	-	TAS	Process
GO:0006334	nucleosome assembly	21873635.	IBA	Process
GO:0006334	nucleosome assembly	20498094.21636898.24699735.25615412.	IDA	Process
GO:0006335	DNA replication-dependent nucleosome assembly	14718166.	IDA	Process
GO:0006336	DNA replication-independent nucleosome assembly	14718166.	IDA	Process
GO:0006352	DNA-templated transcription, initiation	-	IEA	Process
GO:0016020	membrane	19946888.	HDA	Component
GO:0016233	telomere capping	-	TAS	Process
GO:0019904	protein domain specific binding	22368283.	IPI	Function
GO:0032200	telomere organization	17675446.	TAS	Process
GO:0032991	protein-containing complex	14718166.	IDA	Component
GO:0034080	CENP-A containing nucleosome assembly	-	TAS	Process
GO:0044267	cellular protein metabolic process	-	TAS	Process
GO:0045652	regulation of megakaryocyte differentiation	-	TAS	Process
GO:0045653	negative regulation of megakaryocyte differentiation	18474616.	IDA	Process
GO:0045814	negative regulation of gene expression, epigenetic	-	TAS	Process
GO:0046982	protein heterodimerization activity	-	IEA	Function
GO:0051290	protein heterotetramerization	20498094.	IDA	Process
GO:0060964	regulation of gene silencing by miRNA	-	TAS	Process
GO:0070062	extracellular exosome	19199708.20458337.23533145.	HDA	Component

Differential Expression

Expression in 33 cancers

Mutations

Cancer	Chr	Position	Mutation Type	dbSNP	Protein-change	Allele Freq	RBD

Copy Number Variations (CNVs)

Cancer	Type	Freq	Q-value
ACC	AMP	0.1222	0.11282
CESC	DEL	0.0339	0.01281
COAD	DEL	0.1242	0.00038973
DLBC	DEL	0.0417	0.0017831
ESCA	AMP	0.3424	0.0022446
HNSC	DEL	0.1169	7.836e-19
KIRC	AMP	0.0682	0.059566
LUAD	DEL	0.0678	2.5961e-13
LUSC	AMP	0.3413	1.6618e-06
PAAD	AMP	0.212	0.085665
PCPG	AMP	0.0988	0.00029562
READ	AMP	0.2061	0.025154
SKCM	AMP	0.4441	9.6912e-06
STAD	DEL	0.0544	0.0040659
TGCT	AMP	0.3333	0.088103

Survival Analysis

Cancer	P-value	Q-value
ACC	0.04	Kaplan-Meier Survival Analysis
HNSC	0.046	Kaplan-Meier Survival Analysis
TGCT	0.021	Kaplan-Meier Survival Analysis
COAD	0.022	Kaplan-Meier Survival Analysis
PAAD	0.028	Kaplan-Meier Survival Analysis
LIHC	0.044	Kaplan-Meier Survival Analysis
LGG	0.00039	Kaplan-Meier Survival Analysis
THCA	0.037	Kaplan-Meier Survival Analysis
LUAD	0.0046	Kaplan-Meier Survival Analysis
UVM	0.016	Kaplan-Meier Survival Analysis