Npnt nephronectin [Rattus norvegicus (Norway rat)] - Gene

Summary

Official Symbol: Npntprovided by RGD
Official Full Name: nephronectinprovided by RGD
Primary source: RGD:1593709
See related: EnsemblRapid:ENSRNOG00000052873 AllianceGenome:RGD:1593709
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 integrin binding activity. Predicted to be involved in several processes, including cell-cell adhesion mediated by integrin; pilomotor reflex; and positive regulation of ERK1 and ERK2 cascade. Predicted to act upstream of or within several processes, including branching involved in ureteric bud morphogenesis; positive regulation of cell-substrate adhesion; and positive regulation of transforming growth factor beta receptor signaling pathway. Predicted to be located in basement membrane; extracellular region; and smooth muscle contractile fiber. Orthologous to human NPNT (nephronectin). [provided by Alliance of Genome Resources, Nov 2024]
Expression: Biased expression in Lung (RPKM 498.3), Kidney (RPKM 324.9) and 5 other tissues See more
Orthologs: human mouse all
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Genomic context

Location:: 2q43

Exon count:: 14

Annotation release	Status	Assembly	Chr	Location
RS_2024_02	current	GRCr8 (GCF_036323735.1)	2	NC_086020.1 (224065191..224133567, complement)
RS_2023_06	previous assembly	mRatBN7.2 (GCF_015227675.2)	2	NC_051337.1 (221391151..221459527, complement)
106	previous assembly	Rnor_6.0 (GCF_000001895.5)	2	NC_005101.4 (238001767..238068886, complement)

Chromosome 2 - NC_086020.1 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 calcium ion binding	IEA Inferred from Electronic Annotation more info
enables integrin binding	ISO Inferred from Sequence Orthology more info

Process	Evidence Code	Pubs
acts_upstream_of_or_within branching involved in ureteric bud morphogenesis	ISO Inferred from Sequence Orthology more info
involved_in cell-cell adhesion mediated by integrin	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within cell-matrix adhesion	ISO Inferred from Sequence Orthology more info
involved_in cellular response to tumor necrosis factor	ISO Inferred from Sequence Orthology more info
involved_in establishment of protein localization	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within extracellular matrix organization	ISO Inferred from Sequence Orthology more info
involved_in pilomotor reflex	ISO Inferred from Sequence Orthology more info
involved_in positive regulation of ERK1 and ERK2 cascade	ISO Inferred from Sequence Orthology more info
involved_in positive regulation of alkaline phosphatase activity	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within positive regulation of cell-substrate adhesion	ISO Inferred from Sequence Orthology more info
involved_in positive regulation of osteoblast differentiation	ISO Inferred from Sequence Orthology more info
involved_in positive regulation of smooth muscle contraction	ISO Inferred from Sequence Orthology more info
involved_in positive regulation of transcription by RNA polymerase II	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within positive regulation of transforming growth factor beta receptor signaling pathway	ISO Inferred from Sequence Orthology more info
involved_in smooth muscle cell differentiation	ISO Inferred from Sequence Orthology more info
acts_upstream_of transforming growth factor beta receptor signaling pathway	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within ureteric bud development	ISO Inferred from Sequence Orthology more info

Component	Evidence Code	Pubs
located_in basement membrane	ISO Inferred from Sequence Orthology more info
located_in collagen-containing extracellular matrix	ISO Inferred from Sequence Orthology more info
located_in extracellular matrix	ISO Inferred from Sequence Orthology more info
located_in extracellular region	ISO Inferred from Sequence Orthology more info
located_in membrane	IEA Inferred from Electronic Annotation more info
located_in smooth muscle contractile fiber	ISO Inferred from Sequence Orthology more info

General protein information

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Preferred Names: nephronectin

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_001402176.1 → NP_001389105.1 nephronectin precursor

Status: VALIDATED

Source sequence(s)

JAXUCZ010000002

UniProtKB/TrEMBL

A6HVU0

Related

ENSRNOP00000106435.1, ENSRNOT00000136700.1

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_086020.1 Reference GRCr8

Range

224065191..224133567 complement

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GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

XM_039103852.2 → XP_038959780.1 nephronectin isoform X1

UniProtKB/TrEMBL

A0A0G2K500, A0A0G2K8C1, A6HVU1

Related

ENSRNOP00000073239.2, ENSRNOT00000078608.3

Conserved Domains (5) summary

cd06263
Location:467 → 606

MAM; Meprin, A5 protein, and protein tyrosine phosphatase Mu (MAM) domain. MAM is an extracellular domain which mediates protein-protein interactions and is found in a diverse set of proteins, many of which are known to function in cell adhesion. Members ...

cd00054
Location:137 → 169

EGF_CA; Calcium-binding EGF-like domain, present in a large number of membrane-bound and extracellular (mostly animal) proteins. Many of these proteins require calcium for their biological function and calcium-binding sites have been found to be located at the ...

pfam07645
Location:217 → 249

EGF_CA; Calcium-binding EGF domain

pfam12662
Location:198 → 220

cEGF; Complement Clr-like EGF-like

pfam12947
Location:266 → 301

EGF_3; EGF domain
XM_039103854.2 → XP_038959782.1 nephronectin isoform X2

UniProtKB/TrEMBL

A0A8I5Y706

Related

ENSRNOP00000077007.2, ENSRNOT00000118889.2

Conserved Domains (5) summary

cd06263
Location:436 → 575

MAM; Meprin, A5 protein, and protein tyrosine phosphatase Mu (MAM) domain. MAM is an extracellular domain which mediates protein-protein interactions and is found in a diverse set of proteins, many of which are known to function in cell adhesion. Members ...

pfam07645
Location:186 → 218

EGF_CA; Calcium-binding EGF domain

pfam12662
Location:167 → 189

cEGF; Complement Clr-like EGF-like

pfam12947
Location:235 → 270

EGF_3; EGF domain

cl00057
Location:98 → 142

vWFA; Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b para-rossmann type of ...
XM_039103855.2 → XP_038959783.1 nephronectin isoform X3

UniProtKB/TrEMBL

A0A0G2JW46, A6HVT9

Related

ENSRNOP00000069738.3, ENSRNOT00000090834.3

Conserved Domains (5) summary

cd06263
Location:419 → 558

MAM; Meprin, A5 protein, and protein tyrosine phosphatase Mu (MAM) domain. MAM is an extracellular domain which mediates protein-protein interactions and is found in a diverse set of proteins, many of which are known to function in cell adhesion. Members ...

pfam07645
Location:169 → 201

EGF_CA; Calcium-binding EGF domain

pfam12662
Location:150 → 172

cEGF; Complement Clr-like EGF-like

pfam12947
Location:218 → 253

EGF_3; EGF domain

cl00057
Location:81 → 125

vWFA; Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b para-rossmann type of ...