Cdkn2b cyclin-dependent kinase inhibitor 2B [Rattus norvegicus (Norway rat)] - Gene

Summary

Official Symbol: Cdkn2bprovided by RGD
Official Full Name: cyclin-dependent kinase inhibitor 2Bprovided by RGD
Primary source: RGD:2324
See related: Ensembl:ENSRNOG00000006735 AllianceGenome:RGD:2324
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: p15
Summary: Predicted to enable cyclin-dependent protein serine/threonine kinase inhibitor activity and protein kinase binding activity. Involved in several processes, including cellular response to transforming growth factor beta stimulus; negative regulation of cell cycle G1/S phase transition; and negative regulation of glial cell proliferation. Located in nucleus. Used to study endometrial cancer and renal cell carcinoma. Human ortholog(s) of this gene implicated in carcinoma (multiple); erythema infectiosum; hematologic cancer (multiple); open-angle glaucoma; and urinary bladder cancer. Orthologous to human CDKN2B (cyclin dependent kinase inhibitor 2B). [provided by Alliance of Genome Resources, Apr 2022]
Expression: Biased expression in Lung (RPKM 105.6), Adrenal (RPKM 45.9) and 5 other tissues See more
Orthologs: human mouse all
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Genomic context

Location:: 5q32

Exon count:: 4

Annotation release	Status	Assembly	Chr	Location
RS_2024_02	current	GRCr8 (GCF_036323735.1)	5	NC_086023.1 (109123308..109134906, complement)
RS_2023_06	previous assembly	mRatBN7.2 (GCF_015227675.2)	5	NC_051340.1 (104009839..104019082, complement)
106	previous assembly	Rnor_6.0 (GCF_000001895.5)	5	NC_005104.4 (107834353..107857428, complement)

Chromosome 5 - NC_086023.1 Genomic Context describing neighboring genes

Genomic regions, transcripts, and products

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Genomic Sequence:

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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?

the loss of Cdkn2a/2b, which are the most frequently lost foci in human MM, were observed in 8 cases of rat MM (homozygous deletion [5/8] and loss of heterozygosity [3/8]) by array-based comparative genomic hybridization techniques.
Title: Frequent homozygous deletion of Cdkn2a/2b in tremolite-induced malignant mesothelioma in rats.
The P15 gene mutation was significantly correlated with osteosarcoma formation and metastasis.
Title: Relationship Between P15 Gene Mutation and Formation and Metastasis of Malignant Osteosarcoma.
Oviductus Ranae promotes the expression of P15 through a feedback mechanism to prevent excessive proliferation of hepatocytes in aged male rats.
Title: [Effect of Oviductus Ranae on Cyclin D1, CDK6 and P15 expressions in the liver tissue of aged male rats].
Activin A, p15INK4b signaling, and cell competition promote stem/progenitor cell repopulation of livers in aging rats.
Title: Activin A, p15INK4b signaling, and cell competition promote stem/progenitor cell repopulation of livers in aging rats.
iron-induced peritoneal mesothelioma associated with CDKN2A/2B homozygous deletion, supporting the hypothesis that oxidative stress by iron overload is a major cause of CDKN2A/2B homozygous deletion
Title: Homozygous deletion of CDKN2A/2B is a hallmark of iron-induced high-grade rat mesothelioma.
Northern analysis confirmed upregulation of PAI-1, P2X4, and P15INK4B in cultured alveolar epithelial type I cells (AT1); in whole lung, all three proteins were detected in alveolar epithelium in a location consistent with expression in AT1 cells
Title: Identification of three genes of known function expressed by alveolar epithelial type I cells.

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General gene information

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Gene Ontology Provided by RGD

Function	Evidence Code	Pubs
enables cyclin-dependent protein serine/threonine kinase inhibitor activity	IBA Inferred from Biological aspect of Ancestor more info
enables cyclin-dependent protein serine/threonine kinase inhibitor activity	ISO Inferred from Sequence Orthology more info
enables protein kinase binding	IBA Inferred from Biological aspect of Ancestor more info
enables protein kinase binding	ISO Inferred from Sequence Orthology more info

Process	Evidence Code	Pubs
involved_in cellular response to extracellular stimulus	ISO Inferred from Sequence Orthology more info
involved_in cellular response to nutrient	ISO Inferred from Sequence Orthology more info
involved_in cellular response to transforming growth factor beta stimulus	IEP Inferred from Expression Pattern more info	PubMed
involved_in cellular senescence	ISO Inferred from Sequence Orthology more info
involved_in liver development	IEP Inferred from Expression Pattern more info	PubMed
involved_in megakaryocyte differentiation	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within negative regulation of G1/S transition of mitotic cell cycle	ISO Inferred from Sequence Orthology more info
involved_in negative regulation of cell cycle G1/S phase transition	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in negative regulation of cell population proliferation	IBA Inferred from Biological aspect of Ancestor more info
involved_in negative regulation of cell population proliferation	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in negative regulation of cell population proliferation	ISO Inferred from Sequence Orthology more info
involved_in negative regulation of epithelial cell proliferation	ISO Inferred from Sequence Orthology more info
involved_in negative regulation of glial cell proliferation	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in negative regulation of phosphorylation	ISO Inferred from Sequence Orthology more info
involved_in positive regulation of epithelial cell differentiation	IEP Inferred from Expression Pattern more info	PubMed
involved_in positive regulation of transforming growth factor beta receptor signaling pathway	ISO Inferred from Sequence Orthology more info
involved_in regulation of G0 to G1 transition	ISO Inferred from Sequence Orthology more info
involved_in regulation of G1/S transition of mitotic cell cycle	IBA Inferred from Biological aspect of Ancestor more info
involved_in regulation of cyclin-dependent protein serine/threonine kinase activity	IBA Inferred from Biological aspect of Ancestor more info
involved_in response to cytokine	IEP Inferred from Expression Pattern more info	PubMed
involved_in response to organic cyclic compound	IEP Inferred from Expression Pattern more info	PubMed
acts_upstream_of_or_within spleen development	ISO Inferred from Sequence Orthology more info

Component	Evidence Code	Pubs
is_active_in cytoplasm	IBA Inferred from Biological aspect of Ancestor more info
located_in cytoplasm	ISO Inferred from Sequence Orthology more info
is_active_in nucleus	IBA Inferred from Biological aspect of Ancestor more info
located_in nucleus	ISO Inferred from Sequence Orthology more info

General protein information

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Preferred Names: cyclin-dependent kinase 4 inhibitor B

Names: Cyclin dependent kinase inhibitor 2B (p15, inhibits CDK4); cyclin-dependent kinase inhibitor 2B (p15, inhibits CDK4); p14-INK4b; p15-INK4b

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_130812.5 → NP_570825.1 cyclin-dependent kinase 4 inhibitor B

See identical proteins and their annotated locations for NP_570825.1

Status: VALIDATED

Source sequence(s)

JAXUCZ010000005

UniProtKB/Swiss-Prot

P55272

UniProtKB/TrEMBL

A6JRF4, Q5PQW4

Related

ENSRNOP00000089509.1, ENSRNOT00000100738.1

Conserved Domains (3) summary

cd00204
Location:13 → 124

ANK; ankyrin repeats; ankyrin repeats mediate protein-protein interactions in very diverse families of proteins. The number of ANK repeats in a protein can range from 2 to over 20 (ankyrins, for example). ANK repeats may occur in combinations with other ...

pfam12796
Location:10 → 102

Ank_2; Ankyrin repeats (3 copies)

sd00045
Location:10 → 36

ANK; ANK repeat [structural motif]

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_086023.1 Reference GRCr8

Range

109123308..109134906 complement

Download

GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

XM_006238381.3 → XP_006238443.1 cyclin-dependent kinase 4 inhibitor B isoform X2

UniProtKB/TrEMBL

A0A8I6AMT8, Q5PQW4

Related

ENSRNOP00000095082.1

Conserved Domains (3) summary

cd00204
Location:13 → 122

ANK; ankyrin repeats; ankyrin repeats mediate protein-protein interactions in very diverse families of proteins. The number of ANK repeats in a protein can range from 2 to over 20 (ankyrins, for example). ANK repeats may occur in combinations with other ...

pfam12796
Location:10 → 102

Ank_2; Ankyrin repeats (3 copies)

sd00045
Location:10 → 36

ANK; ANK repeat [structural motif]
XM_006238380.5 → XP_006238442.1 cyclin-dependent kinase 4 inhibitor B isoform X1

UniProtKB/TrEMBL

Q5PQW4

Conserved Domains (3) summary

cd00204
Location:13 → 122

ANK; ankyrin repeats; ankyrin repeats mediate protein-protein interactions in very diverse families of proteins. The number of ANK repeats in a protein can range from 2 to over 20 (ankyrins, for example). ANK repeats may occur in combinations with other ...

pfam12796
Location:10 → 102

Ank_2; Ankyrin repeats (3 copies)

sd00045
Location:10 → 36

ANK; ANK repeat [structural motif]