Tubb5 tubulin, beta 5 class I [Rattus norvegicus (Norway rat)] - Gene

Summary

Official Symbol: Tubb5provided by RGD
Official Full Name: tubulin, beta 5 class Iprovided by RGD
Primary source: RGD:628596
See related: Ensembl:ENSRNOG00000061216 AllianceGenome:RGD:628596
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: Tubb
Summary: Enables GTPase activating protein binding activity and protein domain specific binding activity. Predicted to be involved in microtubule cytoskeleton organization; mitotic cell cycle; and regulation of synapse organization. Predicted to act upstream of or within spindle assembly. Located in membrane raft. Part of protein-containing complex. Human ortholog(s) of this gene implicated in complex cortical dysplasia with other brain malformations 6 and congenital symmetric circumferential skin creases 1. Orthologous to human TUBB (tubulin beta class I). [provided by Alliance of Genome Resources, Apr 2022]
Expression: Biased expression in Thymus (RPKM 3131.8), Spleen (RPKM 1592.8) and 9 other tissues See more
Orthologs: human mouse all
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Genomic context

Location:: 20p12

Exon count:: 4

Annotation release	Status	Assembly	Chr	Location
RS_2024_02	current	GRCr8 (GCF_036323735.1)	20	NC_086038.1 (2917577..2921726)
RS_2023_06	previous assembly	mRatBN7.2 (GCF_015227675.2)	20	NC_051355.1 (2912779..2916928)
106	previous assembly	Rnor_6.0 (GCF_000001895.5)	20	NC_005119.4 (3422448..3426420)

Chromosome 20 - NC_086038.1 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
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?

Coimmunoprecipitation experiments of transfected cells revealed that rat TRPV4 and rat tubulin beta 5 associated together in a complex.
Title: Interaction of transient receptor potential vanilloid 4 with annexin A2 and tubulin beta 5.
This protein has been found differentially expressed in the lumbar spinal cord from rats submitted to peripheral lesion during neonatal period.
Title: Proteome analysis of lumbar spinal cord from rats submitted to peripheral lesion during neonatal period.

Submit: New GeneRIF Correction

Interactions

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Products	Interactant	Other Gene	Complex	Source	Pubs	Description

General gene information

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Markers

UniSTS:267009 (e-PCR)
- UniSTS:267009

Tubb5 (e-PCR), detects polymorphism
- UniSTS:267009

Tubb5 (e-PCR), detects polymorphism
- UniSTS:531461

RH127649 (e-PCR)
- UniSTS:210959

PMC26660P4 (e-PCR)
- UniSTS:272347

RH128120 (e-PCR)
- UniSTS:211428

RH140114 (e-PCR)
- UniSTS:211428

BI273785 (e-PCR)
- UniSTS:248824

Gene Ontology Provided by RGD

Function	Evidence Code	Pubs
enables GTP binding	IBA Inferred from Biological aspect of Ancestor more info
enables GTP binding	IEA Inferred from Electronic Annotation more info
enables GTPase activating protein binding	IPI Inferred from Physical Interaction more info	PubMed
enables GTPase activity	IEA Inferred from Electronic Annotation more info
enables MHC class I protein binding	ISO Inferred from Sequence Orthology more info
enables metal ion binding	IEA Inferred from Electronic Annotation more info
enables protein binding	IPI Inferred from Physical Interaction more info	PubMed
enables protein domain specific binding	IPI Inferred from Physical Interaction more info	PubMed
enables protein-containing complex binding	IDA Inferred from Direct Assay more info	PubMed
enables structural constituent of cytoskeleton	IBA Inferred from Biological aspect of Ancestor more info
enables structural constituent of cytoskeleton	IEA Inferred from Electronic Annotation more info
enables structural constituent of cytoskeleton	ISO Inferred from Sequence Orthology more info
enables ubiquitin protein ligase binding	ISO Inferred from Sequence Orthology more info

Process	Evidence Code	Pubs
involved_in biological_process	ND No biological Data available more info
involved_in cytoskeleton organization	IEA Inferred from Electronic Annotation more info
involved_in microtubule cytoskeleton organization	IBA Inferred from Biological aspect of Ancestor more info
involved_in microtubule-based process	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within microtubule-based process	ISO Inferred from Sequence Orthology more info
involved_in mitotic cell cycle	IBA Inferred from Biological aspect of Ancestor more info
acts_upstream_of_or_within odontoblast differentiation	ISO Inferred from Sequence Orthology more info
involved_in regulation of synapse organization	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within spindle assembly	ISO Inferred from Sequence Orthology more info

Component	Evidence Code	Pubs
located_in cell body	ISO Inferred from Sequence Orthology more info
is_active_in cytoplasm	IBA Inferred from Biological aspect of Ancestor more info
located_in cytoplasm	IEA Inferred from Electronic Annotation more info
located_in cytoplasm	ISO Inferred from Sequence Orthology more info
located_in cytoplasmic ribonucleoprotein granule	ISO Inferred from Sequence Orthology more info
located_in intercellular bridge	IEA Inferred from Electronic Annotation more info
located_in intercellular bridge	ISO Inferred from Sequence Orthology more info
located_in membrane raft	IDA Inferred from Direct Assay more info	PubMed
is_active_in microtubule	IBA Inferred from Biological aspect of Ancestor more info
located_in microtubule	IEA Inferred from Electronic Annotation more info
located_in microtubule	ISO Inferred from Sequence Orthology more info
located_in microtubule cytoskeleton	ISO Inferred from Sequence Orthology more info
located_in mitotic spindle	IEA Inferred from Electronic Annotation more info
located_in mitotic spindle	ISO Inferred from Sequence Orthology more info
located_in nuclear envelope lumen	ISO Inferred from Sequence Orthology more info
located_in nucleus	ISO Inferred from Sequence Orthology more info
part_of protein-containing complex	IDA Inferred from Direct Assay more info	PubMed

General protein information

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Preferred Names: tubulin beta-5 chain

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.