Rbbp5 RB binding protein 5, histone lysine methyltransferase complex subunit [Rattus norvegicus (Norway rat)] - Gene

Summary

Official Symbol: Rbbp5provided by RGD
Official Full Name: RB binding protein 5, histone lysine methyltransferase complex subunitprovided by RGD
Primary source: RGD:1305532
See related: EnsemblRapid:ENSRNOG00000021289 AllianceGenome:RGD:1305532
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
Summary: Predicted to enable histone binding activity and transcription cis-regulatory region binding activity. Predicted to be involved in response to estrogen and transcription initiation-coupled chromatin remodeling. Predicted to act upstream of or within DNA damage response. Predicted to be located in nucleolus and nucleoplasm. Predicted to be part of MLL1 complex; MLL3/4 complex; and Set1C/COMPASS complex. Orthologous to human RBBP5 (RB binding protein 5, histone lysine methyltransferase complex subunit). [provided by Alliance of Genome Resources, Nov 2024]
Expression: Biased expression in Thymus (RPKM 131.5), Spleen (RPKM 103.0) and 9 other tissues See more
Orthologs: human mouse all
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Genomic context

Location:: 13q13

Exon count:: 14

Annotation release	Status	Assembly	Chr	Location
RS_2024_02	current	GRCr8 (GCF_036323735.1)	13	NC_086031.1 (46464389..46494244)
RS_2023_06	previous assembly	mRatBN7.2 (GCF_015227675.2)	13	NC_051348.1 (43912254..43939107)
106	previous assembly	Rnor_6.0 (GCF_000001895.5)	13	NC_005112.4 (49250301..49277152)

Chromosome 13 - NC_086031.1 Genomic Context describing neighboring genes

Genomic regions, transcripts, and products

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Genomic Sequence:

Go to nucleotide: Graphics FASTA GenBank

Expression

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See details

Project title: A rat RNA-Seq transcriptomic BodyMap across 11 organs and 4 developmental stages 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

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GeneRIFs: Gene References Into Functions

What's a GeneRIF?

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General gene information

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Markers

RH129466 (e-PCR)
- UniSTS:212772

UniSTS:236515 (e-PCR)
- UniSTS:236515

Gene Ontology Provided by RGD

Function	Evidence Code	Pubs
enables histone binding	ISO Inferred from Sequence Orthology more info
enables transcription cis-regulatory region binding	ISO Inferred from Sequence Orthology more info

Process	Evidence Code	Pubs
acts_upstream_of_or_within DNA damage response	ISO Inferred from Sequence Orthology more info
involved_in biological_process	ND No biological Data available more info
involved_in response to estrogen	ISO Inferred from Sequence Orthology more info
involved_in transcription initiation-coupled chromatin remodeling	ISO Inferred from Sequence Orthology more info

Component	Evidence Code	Pubs
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 MLL3/4 complex	ISO Inferred from Sequence Orthology more info
part_of Set1C/COMPASS complex	IBA Inferred from Biological aspect of Ancestor more info
part_of Set1C/COMPASS complex	ISO Inferred from Sequence Orthology more info
part_of histone methyltransferase complex	ISO Inferred from Sequence Orthology more info
located_in nucleolus	IEA Inferred from Electronic Annotation more info
located_in nucleolus	ISO Inferred from Sequence Orthology more info
located_in nucleoplasm	ISO Inferred from Sequence Orthology more info
located_in nucleus	ISO Inferred from Sequence Orthology more info

General protein information

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Preferred Names: retinoblastoma-binding protein 5

NCBI Reference Sequences (RefSeq)

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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_001107174.2 → NP_001100644.1 retinoblastoma-binding protein 5 isoform 1

See identical proteins and their annotated locations for NP_001100644.1

Status: VALIDATED

Source sequence(s)

JAXUCZ010000013

UniProtKB/TrEMBL

A6IC52, D3ZC01

Related

ENSRNOP00000031945.2, ENSRNOT00000036110.4

Conserved Domains (3) summary

PTZ00441
Location:340 → 498

PTZ00441; sporozoite surface protein 2 (SSP2); Provisional

sd00039
Location:29 → 64

7WD40; WD40 repeat [structural motif]

cl29593
Location:30 → 322

WD40; WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions including adaptor/regulatory modules in signal transduction, pre-mRNA processing and cytoskeleton assembly; typically contains a GH dipeptide 11-24 residues from ...
NM_001429997.1 → NP_001416926.1 retinoblastoma-binding protein 5 isoform 2

Status: VALIDATED

Source sequence(s)

JAXUCZ010000013
NM_001429998.1 → NP_001416927.1 retinoblastoma-binding protein 5 isoform 3

Status: VALIDATED

Source sequence(s)

JAXUCZ010000013
NM_001429999.1 → NP_001416928.1 retinoblastoma-binding protein 5 isoform 4

Status: VALIDATED

Source sequence(s)

JAXUCZ010000013

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_086031.1 Reference GRCr8

Range

46464389..46494244

Download

GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

XM_006249775.5 → XP_006249837.1 retinoblastoma-binding protein 5 isoform X1

Conserved Domains (2) summary

sd00039
Location:29 → 64

7WD40; WD40 repeat [structural motif]

cl29593
Location:30 → 322

WD40; WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions including adaptor/regulatory modules in signal transduction, pre-mRNA processing and cytoskeleton assembly; typically contains a GH dipeptide 11-24 residues from ...
XM_039090699.2 → XP_038946627.1 retinoblastoma-binding protein 5 isoform X4

Conserved Domains (2) summary

COG2319
Location:38 → 321

WD40; WD40 repeat [General function prediction only]

sd00039
Location:29 → 64

7WD40; WD40 repeat [structural motif]
XM_017598792.3 → XP_017454281.1 retinoblastoma-binding protein 5 isoform X2

Conserved Domains (3) summary

PTZ00441
Location:301 → 459

PTZ00441; sporozoite surface protein 2 (SSP2); Provisional

sd00039
Location:30 → 67

7WD40; WD40 repeat [structural motif]

cl29593
Location:34 → 283

WD40; WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions including adaptor/regulatory modules in signal transduction, pre-mRNA processing and cytoskeleton assembly; typically contains a GH dipeptide 11-24 residues from ...
XM_063272287.1 → XP_063128357.1 retinoblastoma-binding protein 5 isoform X3