FlyBase Gene Report: Dmel\His4r

General Information

Symbol

Dmel\His4r

Species

D. melanogaster

Name

Histone H4 replacement

Annotation Symbol

CG3379

Feature Type

protein_coding_gene

FlyBase ID

FBgn0013981

Gene Model Status

Current

Stock Availability

5 publicly available

Gene Snapshot

Contributions welcome

Other Summaries

Alliance
Auto summary
UniProtKB
Interactive Fly

Also Known As

H4r

Key Links

Genomic Location

Cytogenetic map

88C9-88C9

Sequence location

3R:14,625,755..14,626,614 [+]

Recombination map

3-55

RefSeq locus

NT_033777 REGION:14625755..14626614

Sequence

Get Decorated FASTA

Genomic Maps

JBrowse GBrowse

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Other Genome Views

The following external sites may use different assemblies or annotations than FlyBase.

Function

GO Summary Ribbons

Gene Ontology (GO) Annotations (7 terms)

Molecular Function (3 terms)

Terms Based on Experimental Evidence (0 terms)

Terms Based on Predictions or Assertions (3 terms)

CV Term

Evidence

References

enables DNA binding

inferred from electronic annotation with InterPro:IPR001951, InterPro:IPR019809

(assigned by InterPro )

(FlyBase Curators et al., 2004-)

enables histone binding

inferred from sequence or structural similarity with UniProtKB:P62805

(FlyBase Curators, 2008--)

enables protein heterodimerization activity

inferred from electronic annotation with InterPro:IPR009072

(assigned by InterPro )

(FlyBase Curators et al., 2004-)

Biological Process (2 terms)

Terms Based on Experimental Evidence (0 terms)

Terms Based on Predictions or Assertions (2 terms)

CV Term

Evidence

References

involved_in DNA-templated transcription, initiation

inferred from electronic annotation with InterPro:IPR004823

(assigned by InterPro )

(FlyBase Curators et al., 2004-)

involved_in nucleosome assembly

inferred from sequence or structural similarity with UniProtKB:P62805

(FlyBase Curators, 2008--)

Cellular Component (2 terms)

Terms Based on Experimental Evidence (0 terms)

Terms Based on Predictions or Assertions (2 terms)

CV Term

Evidence

References

part_of nucleosome

inferred from sequence or structural similarity with UniProtKB:P62805

(FlyBase Curators, 2008--)

located_in nucleus

inferred from electronic annotation with InterPro:IPR001951, InterPro:IPR004823, InterPro:IPR019809

(assigned by InterPro )

(FlyBase Curators et al., 2004-)

Gene Group (FlyBase)

Protein Family (UniProt)

Belongs to the histone H4 family. (P84040)

Protein Signatures (InterPro)

Summaries

Protein Function (UniProtKB)

Core component of nucleosome. Nucleosomes wrap and compact DNA into chromatin, limiting DNA accessibility to the cellular machineries which require DNA as a template. Histones thereby play a central role in transcription regulation, DNA repair, DNA replication and chromosomal stability. DNA accessibility is regulated via a complex set of post-translational modifications of histones, also called histone code, and nucleosome remodeling.

(UniProt, P84040)

Gene Model and Products

Number of Transcripts

Number of Unique Polypeptides

Please see the JBrowse view of Dmel\His4r for information on other features

To submit a correction to a gene model please use the Contact FlyBase form

Protein Domains (via Pfam)

Isoform displayed:

Pfam protein domains

InterPro name

classification

start

end

Protein Domains (via SMART)

Isoform displayed:

SMART protein domains

InterPro name

classification

start

end

Comments on Gene Model

Gene model reviewed during 5.46

Annotated transcripts do not represent all supported alternative splices within 5' UTR.

Gene model reviewed during 5.55

Low-frequency RNA-Seq exon junction(s) not annotated.

Sequence Ontology: Class of Gene

nuclear_gene

protein_coding_gene

Transcript Data

Annotated Transcripts

Name

FlyBase ID

RefSeq ID

Length (nt)

Assoc. CDS (aa)

His4r-RA

FBtr0082962

NM_169592

576

103

His4r-RB

FBtr0082963

NM_169593

645

103

His4r-RC

FBtr0082964

NM_079628

753

103

His4r-RD

FBtr0334029

NM_001275647

553

103

Additional Transcript Data and Comments

Reported size (kB)

Comments

External Data

Crossreferences

Polypeptide Data

Annotated Polypeptides

Name

FlyBase ID

Predicted MW (kDa)

Length (aa)

Theoretical pI

RefSeq ID

GenBank

His4r-PA

FBpp0082421

11.4

103

11.91

NP_731927

AAF55080

His4r-PB

FBpp0082422

11.4

103

11.91

NP_731928

AAN13612

His4r-PC

FBpp0082423

11.4

103

11.91

NP_524352

AAN13613

His4r-PD

FBpp0306146

11.4

103

11.91

NP_001262576

AGB95957

Polypeptides with Identical Sequences

The group(s) of polypeptides indicated below share identical sequence to each other.

103 aa isoforms: His4r-PA, His4r-PB, His4r-PC, His4r-PD

Additional Polypeptide Data and Comments

Reported size (kDa)

Comments

External Data

Subunit Structure (UniProtKB)

The nucleosome is a histone octamer containing two molecules each of H2A, H2B, H3 and H4 assembled in one H3-H4 heterotetramer and two H2A-H2B heterodimers. The octamer wraps approximately 147 bp of DNA.

(UniProt, P84040)

Post Translational Modification

Acetylated on Lys-6 and Lys-13 during prophase I of meiosis. Phosphorylation of H2A 'Thr-119' is a prerequisite for H4 Lys-6 acetylation but not for H4 Lys-13 acetylation.

(UniProt, P84040)

Crossreferences

InterPro - A database of protein families, domains and functional sites

Linkouts

Sequences Consistent with the Gene Model

Nucleotide / Polypeptide Records

UniProt

Mapped Features

Click to get a list of regulatory features (enhancers, TFBS, etc.) and gene disruptions (point mutations, indels, etc.) within or overlapping Dmel\His4r using the Feature Mapper tool.

External Data

Crossreferences

Eukaryotic Promoter Database - A collection of databases of experimentally validated promoters for selected model organisms.

His4r_1

Linkouts

Expression Data

Expression Summary Ribbons

Colored tiles in ribbon indicate that expression data has been curated by FlyBase for that anatomical location. Colorless tiles indicate that there is no curated data for that location.

For complete stage-specific expression data, view the modENCODE Development RNA-Seq section under High-Throughput Expression below.

Transcript Expression

Additional Descriptive Data

Marker for

Subcellular Localization

CV Term

Polypeptide Expression

mass spectroscopy

Stage

Tissue/Position (including subcellular localization)

Reference

day 5 of adulthood & male -- day 7 of adulthood & male

spermatozoon

(Dorus et al., 2006)

day 7 of adulthood -- day 49 of adulthood

adult heart

(Cammarato et al., 2011)

Additional Descriptive Data

Marker for

Subcellular Localization

CV Term

Evidence

References

Expression Deduced from Reporters

High-Throughput Expression Data

Associated Tools

GBrowse - Visual display of RNA-Seq signals

View Dmel\His4r in GBrowse 2

RNA-Seq by Region - Search RNA-Seq expression levels by exon or genomic region

View exonic expression by developmental stage for Dmel\His4r

View exonic expression by tissue for Dmel\His4r

Bulk Downloads

RNA-Seq RPKM values for all genes

Reference

See Gelbart and Emmert, 2013 for analysis details and data files for all genes.

Developmental Proteome: Life Cycle

Developmental Proteome: Embryogenesis

External Data and Images

Linkouts

FLIGHT - Cell culture data for RNAi and other high-throughput technologies

FBgn0013981

FlyAtlas - Adult expression by tissue, using Affymetrix Dros2 array

CG3379-RA;CG3379-RA

Flygut - An atlas of the Drosophila adult midgut

FBgn0013981

Images

FlyBase Wiki

Image Based Resources

Alleles, Insertions, and Transgenic Constructs

Classical and Insertion Alleles ( 3 )

For All Classical and Insertion Alleles Show

Other relevant insertions

Transgenic Constructs ( 6 )

For All Alleles Carried on Transgenic Constructs Show

Transgenic constructs containing/affecting coding region of His4r

Transgenic constructs containing regulatory region of His4r

Deletions and Duplications ( 0 )

Phenotypes

For more details about a specific phenotype click on the relevant allele symbol.

Lethality

Allele

partially lethal

His4r^LL05512

viable

His4r^Δ

Sterility

Allele

fertile

His4r^Δ

sterile

His4r^LL05512

Phenotype manifest in

Allele

Orthologs

Downloads

Download All DIOPT Orthologs

Download All OrthoDB Orthologs

Human Orthologs (via DIOPT v8.0)

Homo sapiens (Human) (15)

Species\Gene Symbol

Score

Best Score

Best Reverse Score

Source

Alignment

Complementation?

Transgene?

Hsap\HIST1H4D

5 of 15

Yes

Hsap\HIST1H4F

5 of 15

Yes

Hsap\HIST1H4L

5 of 15

Yes

Hsap\HIST2H4A

5 of 15

Yes

Hsap\HIST4H4

5 of 15

Yes

4 of 15

4 of 15

4 of 15

4 of 15

4 of 15

4 of 15

4 of 15

4 of 15

4 of 15

4 of 15

Model Organism Orthologs (via DIOPT v8.0)

Mus musculus (laboratory mouse) (13)

Species\Gene Symbol

Score

Best Score

Best Reverse Score

Source

Alignment

Complementation?

Transgene?

Mmus\Hist1h4n

6 of 15

Yes

5 of 15

5 of 15

5 of 15

5 of 15

5 of 15

4 of 15

4 of 15

4 of 15

4 of 15

4 of 15

4 of 15

3 of 15

Rattus norvegicus (Norway rat) (15)

Rnor\Hist2h4

4 of 13

Yes

3 of 13

3 of 13

3 of 13

2 of 13

2 of 13

2 of 13

2 of 13

2 of 13

2 of 13

1 of 13

1 of 13

Yes

Rnor\LOC100912290

1 of 13

Yes

Rnor\LOC102551184

1 of 13

Rnor\LOC102557184

1 of 13

Xenopus tropicalis (Western clawed frog) (27)

Xtro\hist1h4c

4 of 12

Yes

Xtro\LOC100493041

3 of 12

Xtro\hist1h4a

2 of 12

Xtro\hist1h4k

2 of 12

Yes

2 of 12

2 of 12

2 of 12

2 of 12

2 of 12

2 of 12

2 of 12

2 of 12

2 of 12

2 of 12

2 of 12

2 of 12

Yes

Xtro\LOC105947140

2 of 12

Yes

Xtro\LOC108645245

2 of 12

Yes

Xtro\LOC108646289

2 of 12

Yes

Xtro\LOC108646290

2 of 12

Yes

Xtro\LOC108646291

2 of 12

Yes

Xtro\LOC108648868

2 of 12

Yes

Xtro\LOC100493978

1 of 12

Yes

Xtro\LOC100497406

1 of 12

Yes

Xtro\LOC101730415

1 of 12

Yes

Xtro\LOC101733933

1 of 12

Yes

Xtro\LOC101735268

1 of 12

Danio rerio (Zebrafish) (31)

Drer\LOC562770

5 of 15

Yes

Drer\si:ch211-113a14.6

5 of 15

Yes

Drer\zgc:153409

5 of 15

Yes

Drer\zgc:154164

5 of 15

Yes

4 of 15

4 of 15

4 of 15

4 of 15

Yes

Drer\si:dkey-108k21.12

4 of 15

Drer\si:dkey-108k21.28

4 of 15

Drer\zgc:163040

4 of 15

Drer\zgc:165555

4 of 15

Yes

Drer\hist1h4l

3 of 15

Drer\LOC100329358

3 of 15

Drer\si:ch73-36p18.4

3 of 15

Drer\si:ch211-113a14.17

3 of 15

Drer\si:dkey-23a13.7

3 of 15

Drer\si:dkey-261m9.9

3 of 15

Yes

Drer\si:dkey-261m9.17

3 of 15

Drer\wu:fe37d09

3 of 15

Yes

Drer\LOC564610

2 of 15

Drer\si:ch73-368j24.1

2 of 15

Drer\si:ch211-113a14.25

2 of 15

Yes

Drer\si:ch211-113a14.26

2 of 15

Yes

Drer\si:dkey-108k21.18

2 of 15

Yes

Drer\si:dkey-108k21.19

2 of 15

Yes

Drer\si:dkey-261m9.18

2 of 15

Yes

Drer\LOC570405

1 of 15

Yes

Drer\si:ch73-368j24.3

1 of 15

Yes

Drer\si:ch73-368j24.14

1 of 15

Drer\zgc:194989

1 of 15

Caenorhabditis elegans (Nematode, roundworm) (16)

Cele\his-1

4 of 15

Yes

Cele\his-5

4 of 15

Yes

Cele\his-10

4 of 15

Yes

Cele\his-14

4 of 15

Yes

Cele\his-18

4 of 15

Yes

Cele\his-26

4 of 15

Yes

Cele\his-28

4 of 15

Yes

Cele\his-31

4 of 15

Yes

Cele\his-37

4 of 15

Yes

Cele\his-38

4 of 15

Yes

Cele\his-46

4 of 15

Yes

Cele\his-50

4 of 15

Yes

Cele\his-56

4 of 15

Yes

Cele\his-60

4 of 15

Yes

Cele\his-64

4 of 15

Yes

Cele\his-67

4 of 15

Yes

Arabidopsis thaliana (thale-cress) (8)

Atha\AT1G07660

2 of 9

Yes

Atha\AT1G07820

2 of 9

Yes

Atha\AT3G45930

2 of 9

Yes

Atha\AT3G46320

2 of 9

Yes

Atha\AT3G53730

2 of 9

Yes

Atha\AT5G59690

2 of 9

Yes

Atha\AT5G59970

2 of 9

Yes

Atha\HIS4

2 of 9

Yes

Saccharomyces cerevisiae (Brewer's yeast) (3)

Scer\HHF1

5 of 15

Yes

Scer\HHF2

5 of 15

Yes

Scer\SVF1

1 of 15

Yes

Schizosaccharomyces pombe (Fission yeast) (3)

Spom\hhf1

3 of 12

Yes

Spom\hhf3

3 of 12

Yes

Spom\hhf2

2 of 12

Ortholog(s) in Drosophila Species (via OrthoDB v9.1) ( EOG09190JSK )

Organism

Common Name

Gene

AAA Syntenic Ortholog

Multiple Dmel Genes in this Orthologous Group

Drosophila suzukii

Spotted wing Drosophila

Drosophila simulans

Drosophila simulans

Drosophila simulans

Drosophila sechellia

Drosophila erecta

Drosophila erecta

Drosophila yakuba

Drosophila yakuba

Drosophila yakuba

Drosophila yakuba

Drosophila ananassae

Drosophila ananassae

Drosophila ananassae

Drosophila ananassae

Drosophila ananassae

Drosophila ananassae

Drosophila ananassae

Drosophila ananassae

Drosophila ananassae

Drosophila ananassae

Drosophila ananassae

Drosophila ananassae

Drosophila ananassae

Drosophila ananassae

Drosophila ananassae

Drosophila ananassae

Drosophila ananassae

Drosophila ananassae

Drosophila ananassae

Drosophila ananassae

Drosophila ananassae

Drosophila ananassae