Popdc1 popeye domain cAMP effector 1 [Rattus norvegicus (Norway rat)] - Gene

Summary

Official Symbol: Popdc1provided by RGD
Official Full Name: popeye domain cAMP effector 1provided by RGD
Primary source: RGD:1561100
See related: EnsemblRapid:ENSRNOG00000043199 AllianceGenome:RGD:1561100
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: Bves
Summary: Predicted to enable cAMP binding activity and structural molecule activity. Predicted to be involved in several processes, including positive regulation of receptor recycling; response to ischemia; and substrate adhesion-dependent cell spreading. Predicted to act upstream of or within hematopoietic progenitor cell differentiation; regulation of heart rate; and sinoatrial node cell development. Predicted to be located in several cellular components, including bicellular tight junction; caveola; and lateral plasma membrane. Predicted to be active in sarcolemma. Human ortholog(s) of this gene implicated in autosomal recessive limb-girdle muscular dystrophy type 2X. Orthologous to human POPDC1 (popeye domain cAMP effector 1). [provided by Alliance of Genome Resources, Dec 2024]
Expression: Biased expression in Muscle (RPKM 132.1), Heart (RPKM 98.2) and 1 other tissue See more
Orthologs: human mouse all
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Genomic context

Location:: 20q13

Exon count:: 9

Annotation release	Status	Assembly	Chr	Location
RS_2024_02	current	GRCr8 (GCF_036323735.1)	20	NC_086038.1 (50401611..50442653)
RS_2023_06	previous assembly	mRatBN7.2 (GCF_015227675.2)	20	NC_051355.1 (48819241..48860282)
106	previous assembly	Rnor_6.0 (GCF_000001895.5)	20	NC_005119.4 (50439885..50474678)

Chromosome 20 - NC_086038.1 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
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?

An interaction of heart disease-associated proteins POPDC1/2 with XIRP1 in transverse tubules and intercalated discs.
Title: An interaction of heart disease-associated proteins POPDC1/2 with XIRP1 in transverse tubules and intercalated discs.
Study demonstrated that Popdc1/Bves plays a role in the preservation of cardiomyocyte viability by affecting Rac1 activity and Bnip3 expression.
Title: Popdc1/Bves Functions in the Preservation of Cardiomyocyte Viability While Affecting Rac1 Activity and Bnip3 Expression.
The results indicate that Popdc1 is a caveolae-associated protein important for the preservation of caveolae structural and functional integrity and for heart protection.
Title: Popeye domain containing 1 (Popdc1/Bves) is a caveolae-associated protein involved in ischemia tolerance.
cell surface Bves/Pop1A is composed of an extracellular amino terminus, three transmembrane domains, and a cytoplasmic carboxyl terminus, which regulates cellular distribution of Bves/Pop1A during coronary vessel development.
Title: Membrane topology of Bves/Pop1A, a cell adhesion molecule that displays dynamic changes in cellular distribution during development.

Submit: New GeneRIF Correction

General gene information

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Markers

RH143305 (e-PCR)
- UniSTS:232552

RH143833 (e-PCR)
- UniSTS:233079

BI294843 (e-PCR)
- UniSTS:246142

Gene Ontology Provided by RGD

Function	Evidence Code	Pubs
enables cAMP binding	IBA Inferred from Biological aspect of Ancestor more info
enables cAMP binding	ISO Inferred from Sequence Orthology more info
enables structural molecule activity	ISO Inferred from Sequence Orthology more info
enables structural molecule activity	ISS Inferred from Sequence or Structural Similarity more info

Process	Evidence Code	Pubs
involved_in cell migration involved in heart development	ISO Inferred from Sequence Orthology more info
involved_in epithelial cell-cell adhesion	ISO Inferred from Sequence Orthology more info
involved_in epithelial cell-cell adhesion	ISS Inferred from Sequence or Structural Similarity more info
involved_in heart development	IBA Inferred from Biological aspect of Ancestor more info
involved_in heart development	ISO Inferred from Sequence Orthology more info
involved_in heart development	ISS Inferred from Sequence or Structural Similarity more info
acts_upstream_of_or_within hematopoietic progenitor cell differentiation	ISO Inferred from Sequence Orthology more info
involved_in positive regulation of locomotion	ISO Inferred from Sequence Orthology more info
involved_in positive regulation of locomotion	ISS Inferred from Sequence or Structural Similarity more info
involved_in positive regulation of receptor recycling	ISO Inferred from Sequence Orthology more info
involved_in positive regulation of receptor recycling	ISS Inferred from Sequence or Structural Similarity more info
involved_in regulation of cell shape	ISO Inferred from Sequence Orthology more info
involved_in regulation of cell shape	ISS Inferred from Sequence or Structural Similarity more info
involved_in regulation of endocytic recycling	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within regulation of heart rate	ISO Inferred from Sequence Orthology more info
involved_in regulation of membrane potential	IBA Inferred from Biological aspect of Ancestor more info
acts_upstream_of_or_within regulation of membrane potential	ISO Inferred from Sequence Orthology more info
involved_in response to ischemia	ISO Inferred from Sequence Orthology more info
involved_in response to ischemia	ISS Inferred from Sequence or Structural Similarity more info
acts_upstream_of_or_within sinoatrial node cell development	ISO Inferred from Sequence Orthology more info
involved_in skeletal muscle tissue development	IBA Inferred from Biological aspect of Ancestor more info
involved_in skeletal muscle tissue development	ISO Inferred from Sequence Orthology more info
involved_in skeletal muscle tissue development	ISS Inferred from Sequence or Structural Similarity more info
involved_in striated muscle cell differentiation	IBA Inferred from Biological aspect of Ancestor more info
involved_in substrate adhesion-dependent cell spreading	ISO Inferred from Sequence Orthology more info
involved_in substrate adhesion-dependent cell spreading	ISS Inferred from Sequence or Structural Similarity more info
involved_in vesicle docking	ISO Inferred from Sequence Orthology more info
involved_in vesicle-mediated transport	ISO Inferred from Sequence Orthology more info
involved_in vesicle-mediated transport	ISS Inferred from Sequence or Structural Similarity more info

Component	Evidence Code	Pubs
located_in bicellular tight junction	ISO Inferred from Sequence Orthology more info
located_in bicellular tight junction	ISS Inferred from Sequence or Structural Similarity more info
located_in caveola	ISO Inferred from Sequence Orthology more info
located_in caveola	ISS Inferred from Sequence or Structural Similarity more info
located_in cell junction	ISO Inferred from Sequence Orthology more info
located_in cell projection membrane	ISO Inferred from Sequence Orthology more info
located_in lateral plasma membrane	ISO Inferred from Sequence Orthology more info
located_in lateral plasma membrane	ISS Inferred from Sequence or Structural Similarity more info
located_in membrane	ISO Inferred from Sequence Orthology more info
located_in membrane	ISS Inferred from Sequence or Structural Similarity more info
located_in plasma membrane	ISO Inferred from Sequence Orthology more info
located_in plasma membrane	ISS Inferred from Sequence or Structural Similarity more info
is_active_in sarcolemma	IBA Inferred from Biological aspect of Ancestor more info
located_in sarcolemma	ISO Inferred from Sequence Orthology more info
located_in sarcolemma	ISS Inferred from Sequence or Structural Similarity more info

General protein information

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Preferred Names: blood vessel epicardial substance

Names: popeye domain-containing 1; popeye domain-containing protein 1; popeye protein 1

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_001077590.3 → NP_001071058.1 blood vessel epicardial substance

See identical proteins and their annotated locations for NP_001071058.1

Status: VALIDATED

Source sequence(s)

JAXUCZ010000020

UniProtKB/Swiss-Prot

Q3BCU4

UniProtKB/TrEMBL

A6K6V1

Related

ENSRNOP00000091870.2, ENSRNOT00000066167.6

Conserved Domains (1) summary

pfam04831
Location:40 → 266

Popeye; Popeye protein conserved region
NM_001434645.1 → NP_001421574.1 blood vessel epicardial substance

Status: VALIDATED

Source sequence(s)

JAXUCZ010000020

UniProtKB/Swiss-Prot

Q3BCU4

UniProtKB/TrEMBL

A6K6V1
NM_001434646.1 → NP_001421575.1 blood vessel epicardial substance

Status: VALIDATED

Source sequence(s)

JAXUCZ010000020

UniProtKB/Swiss-Prot

Q3BCU4

UniProtKB/TrEMBL

A6K6V1

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_086038.1 Reference GRCr8

Range

50401611..50442653

Download

GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

XM_039098920.2 → XP_038954848.1 blood vessel epicardial substance isoform X2

Conserved Domains (1) summary

pfam04831
Location:40 → 180

Popeye; Popeye protein conserved region
XM_039098919.2 → XP_038954847.1 blood vessel epicardial substance isoform X1

Conserved Domains (1) summary

pfam04831
Location:40 → 266

Popeye; Popeye protein conserved region
XM_039098918.2 → XP_038954846.1 blood vessel epicardial substance isoform X1

Related

ENSRNOP00000105633.1, ENSRNOT00000162385.1

Conserved Domains (1) summary

pfam04831
Location:40 → 266

Popeye; Popeye protein conserved region
XM_039098917.2 → XP_038954845.1 blood vessel epicardial substance isoform X1

Conserved Domains (1) summary

pfam04831
Location:40 → 266

Popeye; Popeye protein conserved region