Np4 defensin NP-4 precursor [Rattus norvegicus (Norway rat)] - Gene

Summary

Official Symbol: Np4provided by RGD
Official Full Name: defensin NP-4 precursorprovided by RGD
Primary source: RGD:727857
See related: Ensembl:ENSRNOG00000069755 AllianceGenome:RGD:727857
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: NP-4
Summary: Predicted to enable protein homodimerization activity. Predicted to be involved in several processes, including T cell chemotaxis; cellular response to lipopolysaccharide; and defense response to other organism. Predicted to act upstream of or within defense response to bacterium. Predicted to be located in azurophil granule. Predicted to be active in extracellular space. Orthologous to several human genes including DEFA5 (defensin alpha 5). [provided by Alliance of Genome Resources, Apr 2022]
Expression: Restricted expression toward (RPKM 485.6) See more
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Genomic context

Location:: 16q12.5

Exon count:: 3

Annotation release	Status	Assembly	Chr	Location
RS_2024_02	current	GRCr8 (GCF_036323735.1)	16	NC_086034.1 (77197061..77199713, complement)
RS_2023_06	previous assembly	mRatBN7.2 (GCF_015227675.2)	16	NC_051351.1 (70494607..70497261, complement)
106	previous assembly	Rnor_6.0 (GCF_000001895.5)	16	NC_005115.4 (75478548..75481146, complement)

Chromosome 16 - NC_086034.1 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?

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General gene information

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Markers

D16Wox28 (e-PCR)
- UniSTS:518806

D16Wox27 (e-PCR)
- UniSTS:518592

PMC96815P3 (e-PCR)
- UniSTS:273636

PMC96815P4 (e-PCR)
- UniSTS:273637

Gene Ontology Provided by RGD

Function	Evidence Code	Pubs
enables identical protein binding	ISO Inferred from Sequence Orthology more info
enables protein homodimerization activity	ISO Inferred from Sequence Orthology more info

Process	Evidence Code	Pubs
involved_in T cell chemotaxis	ISO Inferred from Sequence Orthology more info
involved_in antibacterial humoral response	IBA Inferred from Biological aspect of Ancestor more info
involved_in antimicrobial humoral immune response mediated by antimicrobial peptide	IBA Inferred from Biological aspect of Ancestor more info
involved_in antimicrobial humoral immune response mediated by antimicrobial peptide	ISO Inferred from Sequence Orthology more info
involved_in cellular response to lipopolysaccharide	IBA Inferred from Biological aspect of Ancestor more info
involved_in defense response	TAS Traceable Author Statement more info	PubMed
involved_in defense response to Gram-negative bacterium	IBA Inferred from Biological aspect of Ancestor more info
involved_in defense response to Gram-positive bacterium	IBA Inferred from Biological aspect of Ancestor more info
involved_in defense response to bacterium	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within defense response to bacterium	ISO Inferred from Sequence Orthology more info
involved_in defense response to fungus	IEA Inferred from Electronic Annotation more info
involved_in disruption of plasma membrane integrity in another organism	IBA Inferred from Biological aspect of Ancestor more info
involved_in innate immune response	ISO Inferred from Sequence Orthology more info
involved_in innate immune response in mucosa	IBA Inferred from Biological aspect of Ancestor more info
involved_in killing of cells of another organism	IEA Inferred from Electronic Annotation more info

Component	Evidence Code	Pubs
located_in azurophil granule	ISO Inferred from Sequence Orthology more info
is_active_in extracellular space	IBA Inferred from Biological aspect of Ancestor more info
located_in extracellular space	IEA Inferred from Electronic Annotation more info

General protein information

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Preferred Names: defensin alpha 4

Names: defensin 3b; neutrophil antibiotic peptide NP-4; neutrophil defensin 4; ratNP-4

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_173299.3 → NP_775421.1 defensin alpha 4 precursor

See identical proteins and their annotated locations for NP_775421.1

Status: VALIDATED

Source sequence(s)

JAXUCZ010000016

UniProtKB/Swiss-Prot

Q62714

UniProtKB/TrEMBL

A6IW99

Conserved Domains (2) summary

pfam00323
Location:64 → 92

Defensin_1; Mammalian defensin

pfam00879
Location:16 → 50

Defensin_propep; Defensin propeptide

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_086034.1 Reference GRCr8

Range

77197061..77199713 complement

Download

GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

XM_006253366.4 → XP_006253428.1 defensin alpha 4 isoform X1

UniProtKB/TrEMBL

A0A8L2QLB0

Related

ENSRNOP00000036962.3

Conserved Domains (2) summary

pfam00323
Location:97 → 125

Defensin_1; Mammalian defensin

pfam00879
Location:49 → 83

Defensin_propep; Defensin propeptide