Katnb1 katanin regulatory subunit B1 [Rattus norvegicus (Norway rat)] - Gene

Summary

Official Symbol: Katnb1provided by RGD
Official Full Name: katanin regulatory subunit B1provided by RGD
Primary source: RGD:1311256
See related: Ensembl:ENSRNOG00000014626 AllianceGenome:RGD:1311256
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 ATPase regulator activity; dynein complex binding activity; and protein heterodimerization activity. Involved in microtubule severing; positive regulation of cell death; and positive regulation of neuron projection development. Located in growth cone; midbody; and neuronal cell body. Human ortholog(s) of this gene implicated in lissencephaly 6. Orthologous to human KATNB1 (katanin regulatory subunit B1). [provided by Alliance of Genome Resources, Apr 2022]
Expression: Biased expression in Testes (RPKM 230.2), Brain (RPKM 84.7) and 9 other tissues See more
Orthologs: human mouse all
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Genomic context

Location:: 19p13

Exon count:: 21

Annotation release	Status	Assembly	Chr	Location
RS_2024_02	current	GRCr8 (GCF_036323735.1)	19	NC_086037.1 (9927249..9946750, complement)
RS_2023_06	previous assembly	mRatBN7.2 (GCF_015227675.2)	19	NC_051354.1 (9921216..9940853, complement)
106	previous assembly	Rnor_6.0 (GCF_000001895.5)	19	NC_005118.4 (10340027..10360319, complement)

Chromosome 19 - NC_086037.1 Genomic Context describing neighboring genes

Genomic regions, transcripts, and products

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Go to reference sequence details

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?

the ratio of P60 to P80 varies markedly in different tissues, at different phases of development, and regionally within the neuron. Suggested that the effects on neuronal morphology are dependent on the degree of microtubule severing and loss of polymer
Title: Regulation of microtubule severing by katanin subunits during neuronal development.

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

KATNB1 (e-PCR)
- UniSTS:278589

AI710639 (e-PCR)
- UniSTS:243403

RH140643 (e-PCR)
- UniSTS:222712

Gene Ontology Provided by RGD

Function	Evidence Code	Pubs
enables ATPase regulator activity	ISO Inferred from Sequence Orthology more info
enables dynein complex binding	ISO Inferred from Sequence Orthology more info
enables microtubule binding	IEA Inferred from Electronic Annotation more info
enables protein binding	IPI Inferred from Physical Interaction more info	PubMed
enables protein heterodimerization activity	ISO Inferred from Sequence Orthology more info

Process	Evidence Code	Pubs
involved_in cell division	IEA Inferred from Electronic Annotation more info
involved_in microtubule depolymerization	IBA Inferred from Biological aspect of Ancestor more info
involved_in microtubule severing	IDA Inferred from Direct Assay more info	PubMed
involved_in mitotic chromosome movement towards spindle pole	IEA Inferred from Electronic Annotation more info
involved_in negative regulation of microtubule depolymerization	ISO Inferred from Sequence Orthology more info
involved_in positive regulation of apoptotic process	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in positive regulation of microtubule depolymerization	ISO Inferred from Sequence Orthology more info
involved_in positive regulation of neuron projection development	IDA Inferred from Direct Assay more info	PubMed

Component	Evidence Code	Pubs
located_in axon	IDA Inferred from Direct Assay more info	PubMed
located_in axon	ISO Inferred from Sequence Orthology more info
located_in centrosome	ISO Inferred from Sequence Orthology more info
located_in cytoplasm	ISO Inferred from Sequence Orthology more info
located_in cytosol	IEA Inferred from Electronic Annotation more info
located_in cytosol	ISO Inferred from Sequence Orthology more info
located_in growth cone	IDA Inferred from Direct Assay more info	PubMed
part_of katanin complex	IBA Inferred from Biological aspect of Ancestor more info
part_of katanin complex	ISO Inferred from Sequence Orthology 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 midbody	IDA Inferred from Direct Assay more info	PubMed
located_in neuronal cell body	IDA Inferred from Direct Assay more info	PubMed
located_in plasma membrane	IEA Inferred from Electronic Annotation more info
located_in plasma membrane	ISO Inferred from Sequence Orthology more info
located_in spindle	ISO Inferred from Sequence Orthology more info
located_in spindle pole	ISO Inferred from Sequence Orthology more info

General protein information

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Preferred Names: katanin p80 WD40 repeat-containing subunit B1

Names: katanin p80 (WD repeat containing) subunit B 1; katanin p80 (WD40-containing) subunit B 1

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_001024746.2 → NP_001019917.1 katanin p80 WD40 repeat-containing subunit B1

See identical proteins and their annotated locations for NP_001019917.1

Status: VALIDATED

Source sequence(s)

JAXUCZ010000019

UniProtKB/TrEMBL

B1WBN6, Q4VFZ4

Related

ENSRNOP00000019770.6, ENSRNOT00000019770.7

Conserved Domains (4) summary

PRK14951
Location:386 → 494

PRK14951; DNA polymerase III subunits gamma and tau; Provisional

cd00200
Location:7 → 257

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 ...

sd00039
Location:67 → 103

7WD40; WD40 repeat [structural motif]

pfam13925
Location:497 → 648

Katanin_con80; con80 domain of Katanin

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_086037.1 Reference GRCr8

Range

9927249..9946750 complement

Download

GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

XM_063277855.1 → XP_063133925.1 katanin p80 WD40 repeat-containing subunit B1 isoform X4
XM_017601201.3 → XP_017456690.1 katanin p80 WD40 repeat-containing subunit B1 isoform X2

UniProtKB/TrEMBL

B1WBN6

Conserved Domains (3) summary

cd00200
Location:7 → 257

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 ...

sd00039
Location:67 → 103

7WD40; WD40 repeat [structural motif]

pfam13925
Location:496 → 651

Katanin_con80; con80 domain of Katanin
XM_017601198.3 → XP_017456687.1 katanin p80 WD40 repeat-containing subunit B1 isoform X1

UniProtKB/TrEMBL

A0A0G2JX20, B1WBN6

Related

ENSRNOP00000070102.2

Conserved Domains (4) summary

PRK14951
Location:386 → 494

PRK14951; DNA polymerase III subunits gamma and tau; Provisional

cd00200
Location:7 → 257

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 ...

sd00039
Location:67 → 103

7WD40; WD40 repeat [structural motif]

pfam13925
Location:497 → 652

Katanin_con80; con80 domain of Katanin
XM_063277854.1 → XP_063133924.1 katanin p80 WD40 repeat-containing subunit B1 isoform X3

UniProtKB/TrEMBL

Q4VFZ4
XM_063277852.1 → XP_063133922.1 katanin p80 WD40 repeat-containing subunit B1 isoform X1

UniProtKB/TrEMBL

A0A0G2JX20
XM_063277856.1 → XP_063133926.1 katanin p80 WD40 repeat-containing subunit B1 isoform X4
XM_063277853.1 → XP_063133923.1 katanin p80 WD40 repeat-containing subunit B1 isoform X3

UniProtKB/TrEMBL

Q4VFZ4
XM_017601200.3 → XP_017456689.1 katanin p80 WD40 repeat-containing subunit B1 isoform X1

UniProtKB/TrEMBL

A0A0G2JX20, B1WBN6

Conserved Domains (4) summary

PRK14951
Location:386 → 494

PRK14951; DNA polymerase III subunits gamma and tau; Provisional

cd00200
Location:7 → 257

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 ...

sd00039
Location:67 → 103

7WD40; WD40 repeat [structural motif]

pfam13925
Location:497 → 652

Katanin_con80; con80 domain of Katanin