P3h4 prolyl 3-hydroxylase family member 4 [Rattus norvegicus (Norway rat)] - Gene

Summary

Official Symbol: P3h4provided by RGD
Official Full Name: prolyl 3-hydroxylase family member 4provided by RGD
Primary source: RGD:620767
See related: EnsemblRapid:ENSRNOG00000015787 AllianceGenome:RGD:620767
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: Sc65; Leprel4
Summary: Predicted to contribute to collagen binding activity. Predicted to be involved in several processes, including collagen biosynthetic process; collagen fibril organization; and peptidyl-lysine hydroxylation. Located in synaptonemal complex. Orthologous to human P3H4 (prolyl 3-hydroxylase family member 4 (inactive)). [provided by Alliance of Genome Resources, Oct 2024]
Expression: Biased expression in Adrenal (RPKM 36.8), Heart (RPKM 32.1) and 8 other tissues See more
Orthologs: human mouse all
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Genomic context

Location:: 10q31

Exon count:: 8

Annotation release	Status	Assembly	Chr	Location
RS_2024_02	current	GRCr8 (GCF_036323735.1)	10	NC_086028.1 (85838528..85845476, complement)
RS_2023_06	previous assembly	mRatBN7.2 (GCF_015227675.2)	10	NC_051345.1 (85338158..85345108, complement)
106	previous assembly	Rnor_6.0 (GCF_000001895.5)	10	NC_005109.4 (88318231..88325326, complement)

Chromosome 10 - NC_086028.1 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

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Interactions

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Products	Interactant	Other Gene	Complex	Source	Pubs	Description

General gene information

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Gene Ontology Provided by RGD

Function	Evidence Code	Pubs
contributes_to collagen binding	IBA Inferred from Biological aspect of Ancestor more info

Process	Evidence Code	Pubs
involved_in bone remodeling	IEA Inferred from Electronic Annotation more info
involved_in bone remodeling	ISO Inferred from Sequence Orthology more info
involved_in bone remodeling	ISS Inferred from Sequence or Structural Similarity more info
involved_in collagen biosynthetic process	IEA Inferred from Electronic Annotation more info
involved_in collagen biosynthetic process	ISO Inferred from Sequence Orthology more info
involved_in collagen biosynthetic process	ISS Inferred from Sequence or Structural Similarity more info
involved_in collagen fibril organization	IBA Inferred from Biological aspect of Ancestor more info
involved_in collagen fibril organization	IEA Inferred from Electronic Annotation more info
involved_in collagen fibril organization	ISO Inferred from Sequence Orthology more info
involved_in collagen fibril organization	ISS Inferred from Sequence or Structural Similarity more info
involved_in peptidyl-lysine hydroxylation	IEA Inferred from Electronic Annotation more info
involved_in peptidyl-lysine hydroxylation	ISO Inferred from Sequence Orthology more info
involved_in peptidyl-lysine hydroxylation	ISS Inferred from Sequence or Structural Similarity more info

Component	Evidence Code	Pubs
part_of catalytic complex	IEA Inferred from Electronic Annotation more info
part_of catalytic complex	ISO Inferred from Sequence Orthology more info
is_active_in endoplasmic reticulum	IBA Inferred from Biological aspect of Ancestor more info
located_in endoplasmic reticulum	IEA Inferred from Electronic Annotation more info
located_in endoplasmic reticulum	ISO Inferred from Sequence Orthology more info
located_in endoplasmic reticulum	ISS Inferred from Sequence or Structural Similarity more info
located_in intracellular membrane-bounded organelle	ISO Inferred from Sequence Orthology more info
located_in synaptonemal complex	IDA Inferred from Direct Assay more info	PubMed

General protein information

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Preferred Names: endoplasmic reticulum protein SC65

Names: SC65 synaptonemal complex protein; leprecan-like 4; leprecan-like protein 4; prolyl 3-hydroxylase family member 4 (non-enzymatic); synaptonemal complex protein SC65

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.