Ecm1 extracellular matrix protein 1 [Rattus norvegicus (Norway rat)] - Gene

Summary

Official Symbol: Ecm1provided by RGD
Official Full Name: extracellular matrix protein 1provided by RGD
Primary source: RGD:620357
See related: Ensembl:ENSRNOG00000021166 AllianceGenome:RGD:620357
Gene type: protein coding
RefSeq status: PROVISIONAL
Organism: Rattus norvegicus
Lineage: Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Rattus
Summary: Predicted to enable several functions, including interleukin-2 receptor binding activity; laminin binding activity; and protein C-terminus binding activity. Predicted to be involved in several processes, including negative regulation of bone mineralization; positive regulation of I-kappaB kinase/NF-kappaB signaling; and positive regulation of endothelial cell proliferation. Predicted to act upstream of or within several processes, including chondrocyte development; regulation of T cell migration; and regulation of type 2 immune response. Predicted to be active in collagen-containing extracellular matrix and extracellular space. Human ortholog(s) of this gene implicated in lipoid proteinosis. Orthologous to human ECM1 (extracellular matrix protein 1). [provided by Alliance of Genome Resources, Apr 2022]
Expression: Biased expression in Lung (RPKM 296.4), Heart (RPKM 199.9) and 8 other tissues See more
Orthologs: human mouse all
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Genomic context

Location:: 2q34

Exon count:: 11

Annotation release	Status	Assembly	Chr	Location
RS_2024_02	current	GRCr8 (GCF_036323735.1)	2	NC_086020.1 (185976439..185981656, complement)
RS_2023_06	previous assembly	mRatBN7.2 (GCF_015227675.2)	2	NC_051337.1 (183287491..183292729, complement)
106	previous assembly	Rnor_6.0 (GCF_000001895.5)	2	NC_005101.4 (197855468..197860973, 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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Markers

Ecm1 (e-PCR), detects polymorphism
- UniSTS:502657

Gene Ontology Provided by RGD

Function	Evidence Code	Pubs
enables interleukin-2 receptor binding	IEA Inferred from Electronic Annotation more info
enables interleukin-2 receptor binding	ISO Inferred from Sequence Orthology more info
enables protease binding	IEA Inferred from Electronic Annotation more info
enables protease binding	ISO Inferred from Sequence Orthology more info

Process	Evidence Code	Pubs
involved_in angiogenesis	IEA Inferred from Electronic Annotation more info
involved_in biological_process	ND No biological Data available more info
involved_in biomineral tissue development	IEA Inferred from Electronic Annotation more info
involved_in chondrocyte development	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within chondrocyte development	ISO Inferred from Sequence Orthology more info
involved_in endochondral bone growth	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within endochondral bone growth	ISO Inferred from Sequence Orthology more info
involved_in inflammatory response	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within inflammatory response	ISO Inferred from Sequence Orthology more info
involved_in negative regulation of bone mineralization	IEA Inferred from Electronic Annotation more info
involved_in negative regulation of bone mineralization	ISO Inferred from Sequence Orthology more info
involved_in negative regulation of bone mineralization	ISS Inferred from Sequence or Structural Similarity more info
involved_in negative regulation of cytokine-mediated signaling pathway	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within negative regulation of cytokine-mediated signaling pathway	ISO Inferred from Sequence Orthology more info
involved_in ossification	IEA Inferred from Electronic Annotation more info
involved_in positive regulation of angiogenesis	IEA Inferred from Electronic Annotation more info
involved_in positive regulation of angiogenesis	ISO Inferred from Sequence Orthology more info
involved_in positive regulation of angiogenesis	ISS Inferred from Sequence or Structural Similarity more info
involved_in positive regulation of canonical NF-kappaB signal transduction	ISO Inferred from Sequence Orthology more info	PubMed
involved_in positive regulation of endothelial cell proliferation	IEA Inferred from Electronic Annotation more info
involved_in positive regulation of endothelial cell proliferation	ISO Inferred from Sequence Orthology more info
involved_in positive regulation of endothelial cell proliferation	ISS Inferred from Sequence or Structural Similarity more info
involved_in regulation of T cell migration	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within regulation of T cell migration	ISO Inferred from Sequence Orthology more info
involved_in regulation of bone mineralization	IBA Inferred from Biological aspect of Ancestor more info
acts_upstream_of_or_within regulation of bone mineralization	ISO Inferred from Sequence Orthology more info
involved_in regulation of transcription by RNA polymerase II	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within regulation of transcription by RNA polymerase II	ISO Inferred from Sequence Orthology more info
involved_in regulation of type 2 immune response	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within regulation of type 2 immune response	ISO Inferred from Sequence Orthology more info
involved_in signal transduction	IEA Inferred from Electronic Annotation more info

Component	Evidence Code	Pubs
is_active_in collagen-containing extracellular matrix	IBA Inferred from Biological aspect of Ancestor more info
located_in collagen-containing extracellular matrix	IEA Inferred from Electronic Annotation more info
located_in collagen-containing extracellular matrix	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
located_in extracellular space	ISO Inferred from Sequence Orthology more info

General protein information

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Preferred Names: extracellular matrix protein 1

Names: secretory component p85

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_053882.1 → NP_446334.1 extracellular matrix protein 1 precursor

See identical proteins and their annotated locations for NP_446334.1

Status: PROVISIONAL

Source sequence(s)

BC085879

UniProtKB/Swiss-Prot

Q5U2S9, Q62894

UniProtKB/TrEMBL

A0A8L2QGP4, A6K307

Related

ENSRNOP00000028740.4, ENSRNOT00000028740.6

Conserved Domains (1) summary

pfam05782
Location:22 → 562

ECM1; Extracellular matrix protein 1 (ECM1)

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

185976439..185981656 complement

Download

GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

XM_006232942.5 → XP_006233004.1 extracellular matrix protein 1 isoform X1

UniProtKB/TrEMBL

A0A8L2QGP4

Conserved Domains (1) summary

pfam05782
Location:22 → 561

ECM1; Extracellular matrix protein 1 (ECM1)
XM_063281170.1 → XP_063137240.1 extracellular matrix protein 1 isoform X3
XM_039101580.2 → XP_038957508.1 extracellular matrix protein 1 isoform X2

UniProtKB/TrEMBL

A0A8L2QGP4

Conserved Domains (1) summary

pfam05782
Location:22 → 544

ECM1; Extracellular matrix protein 1 (ECM1)