Pip4k2c phosphatidylinositol-5-phosphate 4-kinase type 2 gamma [Rattus norvegicus (Norway rat)] - Gene

Summary

Official Symbol: Pip4k2cprovided by RGD
Official Full Name: phosphatidylinositol-5-phosphate 4-kinase type 2 gammaprovided by RGD
Primary source: RGD:621711
See related: Ensembl:ENSRNOG00000005138 AllianceGenome:RGD:621711
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: Pip5k2c
Summary: Enables 1-phosphatidylinositol-4-phosphate 5-kinase activity. Predicted to be involved in several processes, including 1-phosphatidyl-1D-myo-inositol 4,5-bisphosphate biosynthetic process; negative regulation of 1-phosphatidylinositol-4-phosphate 5-kinase activity; and positive regulation of autophagosome assembly. Located in endoplasmic reticulum. Orthologous to human PIP4K2C (phosphatidylinositol-5-phosphate 4-kinase type 2 gamma). [provided by Alliance of Genome Resources, Apr 2022]
Expression: Biased expression in Kidney (RPKM 237.9), Thymus (RPKM 129.9) and 9 other tissues See more
Orthologs: human mouse all
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Genomic context

Location:: 7q22

Exon count:: 11

Annotation release	Status	Assembly	Chr	Location
RS_2024_02	current	GRCr8 (GCF_036323735.1)	7	NC_086025.1 (64905322..64920380, complement)
RS_2023_06	previous assembly	mRatBN7.2 (GCF_015227675.2)	7	NC_051342.1 (63020004..63035086, complement)
106	previous assembly	Rnor_6.0 (GCF_000001895.5)	7	NC_005106.4 (70483948..70498995, complement)

Chromosome 7 - NC_086025.1 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?

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General gene information

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Gene Ontology Provided by RGD

Function	Evidence Code	Pubs
enables 1-phosphatidylinositol-4-phosphate 5-kinase activity	IBA Inferred from Biological aspect of Ancestor more info
enables 1-phosphatidylinositol-4-phosphate 5-kinase activity	IDA Inferred from Direct Assay more info	PubMed
enables 1-phosphatidylinositol-4-phosphate 5-kinase activity	IEA Inferred from Electronic Annotation more info
enables 1-phosphatidylinositol-4-phosphate 5-kinase activity	ISO Inferred from Sequence Orthology more info
enables 1-phosphatidylinositol-5-phosphate 4-kinase activity	IBA Inferred from Biological aspect of Ancestor more info
enables ATP binding	IEA Inferred from Electronic Annotation more info
enables identical protein binding	IEA Inferred from Electronic Annotation more info
enables identical protein binding	ISO Inferred from Sequence Orthology more info
enables phosphatidylinositol kinase activity	IEA Inferred from Electronic Annotation more info

Process	Evidence Code	Pubs
involved_in 1-phosphatidyl-1D-myo-inositol 4,5-bisphosphate biosynthetic process	IEA Inferred from Electronic Annotation more info
involved_in 1-phosphatidyl-1D-myo-inositol 4,5-bisphosphate biosynthetic process	ISO Inferred from Sequence Orthology more info
involved_in 1-phosphatidyl-1D-myo-inositol 4,5-bisphosphate biosynthetic process	ISS Inferred from Sequence or Structural Similarity more info
involved_in negative regulation of insulin receptor signaling pathway	IEA Inferred from Electronic Annotation more info
involved_in negative regulation of insulin receptor signaling pathway	ISO Inferred from Sequence Orthology more info
involved_in negative regulation of insulin receptor signaling pathway	ISS Inferred from Sequence or Structural Similarity more info
involved_in phosphatidylinositol biosynthetic process	NAS Non-traceable Author Statement more info	PubMed
involved_in phosphatidylinositol metabolic process	IEA Inferred from Electronic Annotation more info
involved_in phosphatidylinositol phosphate biosynthetic process	IBA Inferred from Biological aspect of Ancestor more info
involved_in positive regulation of autophagosome assembly	IEA Inferred from Electronic Annotation more info
involved_in positive regulation of autophagosome assembly	ISO Inferred from Sequence Orthology more info
involved_in regulation of autophagy	ISO Inferred from Sequence Orthology more info

Component	Evidence Code	Pubs
located_in autophagosome	IEA Inferred from Electronic Annotation more info
located_in autophagosome	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 endoplasmic reticulum	IEA Inferred from Electronic Annotation more info
located_in intracellular organelle	ISO Inferred from Sequence Orthology more info
located_in nucleoplasm	IEA Inferred from Electronic Annotation more info
located_in nucleoplasm	ISO Inferred from Sequence Orthology more info
is_active_in plasma membrane	IBA Inferred from Biological aspect of Ancestor more info
located_in plasma membrane	IEA Inferred from Electronic Annotation more info
located_in plasma membrane	ISO Inferred from Sequence Orthology more info

General protein information

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Preferred Names: phosphatidylinositol 5-phosphate 4-kinase type-2 gamma

Names: PI(5)P 4-kinase type II gamma; PIP4KII-gamma; phosphatidylinositol 5-phosphate 4-kinase type II gamma; phosphatidylinositol-4-phosphate 5-kinase, type II, gamma

NP_536728.2

EC 2.7.1.149

XP_038934243.1

EC 2.7.1.149

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_080480.2 → NP_536728.2 phosphatidylinositol 5-phosphate 4-kinase type-2 gamma

See identical proteins and their annotated locations for NP_536728.2

Status: VALIDATED

Source sequence(s)

AF030558, BF556960, BI275922, CO400462, CV115612, DN934555

UniProtKB/Swiss-Prot

O88370

UniProtKB/TrEMBL

A6HQT5, G3V9W5

Related

ENSRNOP00000061758.1, ENSRNOT00000067774.4

Conserved Domains (1) summary

cd17311
Location:46 → 418

PIPKc_PIP5K2C; Phosphatidylinositol phosphate kinase (PIPK) catalytic domain found in Phosphatidylinositol 5-phosphate 4-kinase type-2 gamma (PIP5K2C) and similar proteins

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_086025.1 Reference GRCr8

Range

64905322..64920380 complement

Download

GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

XM_039078315.2 → XP_038934243.1 phosphatidylinositol 5-phosphate 4-kinase type-2 gamma isoform X1

UniProtKB/Swiss-Prot

O88370

Conserved Domains (1) summary

cl28923
Location:1 → 349

PIPKc; Phosphatidylinositol phosphate kinase (PIPK) catalytic domain family