ZFIN is now using GRCz12tu for Genomic Data

Gene

popdc1

ID

ZDB-GENE-040624-11

Name

popeye domain cAMP effector 1

Symbol

popdc1 Nomenclature History

Previous Names

pop1 (1)
bves
zgc:86887

Type

protein_coding_gene

Location

Chr: 16 Mapping Details/Browsers

Genome Assembly

GRCz12tu

Annotation Status

Current

Description

Predicted to enable cAMP binding activity and structural molecule activity. Involved in heart development. Acts upstream of or within several processes, including bicellular tight junction assembly; eye morphogenesis; and heart morphogenesis. Located in sarcolemma. Is expressed in several structures, including EVL; cardiovascular system; eye; integument; and optic vesicle. Used to study tetralogy of Fallot. 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).

Genome Resources

Note

None

Comparative Information

Expression

All Expression Data

13 figures from 4 publications

Cross-Species Comparison

High Throughput Data

Expression Atlas

UO scRNA-seq (UCSC browser)

Single Cell Expression Atlas

Daniocell

Thisse Expression Data

IMAGE:6907272 (8 images)

Wild Type Expression Summary

Phenotype

All Phenotype Data: 15 figures from 6 publications
Cross-Species Comparison: Alliance

Phenotype Summary

Mutations

Mutants

Sequence Targeting Reagents

Human Disease

Associated With popdc1 Human Ortholog

Disease Ontology Term	Multi-Species Data	OMIM Term	OMIM Phenotype ID
autosomal recessive limb-girdle muscular dystrophy type 2X	Alliance	Muscular dystrophy, limb-girdle, autosomal recessive 25	616812

Associated With popdc1 Via Experimental Models

Human Disease	Fish	Conditions	Citations
tetralogy of Fallot	AB + MO1-popdc1	standard conditions	Shi et al., 2020

Gene Ontology

Protein Domains

Domain, Family, and Site Summary

Type	InterPro ID	Name
Domain	IPR055272	POPDC1-3 domain
Family	IPR006916	POPDC1-3
Homologous_superfamily	IPR014710	RmlC-like jelly roll fold
Homologous_superfamily	IPR018490	Cyclic nucleotide-binding domain superfamily

Domain Details Per Protein

Protein	Additional Resources	Length	Cyclic nucleotide-binding domain superfamily	POPDC1-3	POPDC1-3 domain	RmlC-like jelly roll fold
UniProtKB:G9HVJ5	InterPro	352
UniProtKB:Q5PQZ7	InterPro	352

Transcripts

Genome Browsers

NCBI Map Viewer

ZFIN

Type	Name	Annotation Method	Length (nt)	Analysis
mRNA	bves-201 (1) Ensembl	Ensembl	1,771 nt	Select Tool ZFIN BLAST
mRNA	bves-202 (1) Ensembl	Ensembl	1,798 nt	Select Tool ZFIN BLAST
mRNA	bves-203 (1) Ensembl	Ensembl	1,827 nt	Select Tool ZFIN BLAST
mRNA	bves-204 (1) Ensembl	Ensembl	3,020 nt	Select Tool ZFIN BLAST

Interactions and Pathways

No data available

Antibodies

Name	Type	Antigen Genes	Isotype	Host Organism	Assay	Source	Citations
Ab1-bves	polyclonal	popdc1		Rabbit	IHC		2
Ab2-bves	polyclonal	popdc1		Rabbit	IHC	Sigma-Aldrich	1

Plasmids

No data available

Constructs

Marker Relationships

Sequences

Genome Browsers

NCBI Map Viewer

ZFIN

Orthology

Comparative Orthology: Alliance
Gene Tree: Ensembl

Citations