apc APC regulator of WNT signaling pathway [Danio rerio (zebrafish)] - Gene

Summary

Official Symbol: apcprovided by ZNC
Official Full Name: APC regulator of WNT signaling pathwayprovided by ZNC
Primary source: ZFIN:ZDB-GENE-031112-7
See related: Ensembl:ENSDARG00000058868 AllianceGenome:ZFIN:ZDB-GENE-031112-7
Gene type: protein coding
RefSeq status: VALIDATED
Organism: Danio rerio
Lineage: Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Actinopterygii; Neopterygii; Teleostei; Ostariophysi; Cypriniformes; Danionidae; Danioninae; Danio
Also known as: cb965; im:7150932; im:7152872
Summary: Predicted to enable beta-catenin binding activity; microtubule binding activity; and protein kinase regulator activity. Involved in somitogenesis. Acts upstream of with a positive effect on digestive tract development. Acts upstream of or within several processes, including animal organ development; chordate embryonic development; and embryonic pectoral fin morphogenesis. Predicted to be located in several cellular components, including centrosome; kinetochore; and lateral plasma membrane. Predicted to be part of beta-catenin destruction complex. Is expressed in hypochord; nervous system; neural tube; and trigeminal placode. Human ortholog(s) of this gene implicated in several diseases, including carcinoma (multiple); endometrial cancer (multiple); familial adenomatous polyposis 1; hereditary desmoid disease; and medulloblastoma. Orthologous to human APC (APC regulator of WNT signaling pathway). [provided by Alliance of Genome Resources, Apr 2022]
Orthologs: human mouse all
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Genomic context

Location:: chromosome: 10

Exon count:: 19

Annotation release	Status	Assembly	Chr	Location
106	current	GRCz11 (GCF_000002035.6)	10	NC_007121.7 (1829489..1893095)
105	previous assembly	GRCz10 (GCF_000002035.5)	10	NC_007121.6 (1801737..1865381)
103	previous assembly	Zv9 (GCF_000002035.4)	10	NC_007121.5 (1868423..1921518)

Chromosome 10 - NC_007121.7 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: Sequencing the Zebrafish transcriptome from a range of tissues and developmental stages
Description: Sequencing the Zebrafish transcriptome from a range of tissues and developmental stages
BioProject: PRJEB1986
Analysis date: Fri Dec 8 19:48:10 2017

Bibliography

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GeneRIFs: Gene References Into Functions

What's a GeneRIF?

APC controls the production of RA in the gut by regulating the expression of the retinol dehydrogenase, rdh1l
Title: The zebrafish retinol dehydrogenase, rdh1l, is essential for intestinal development and is regulated by the tumor suppressor adenomatous polyposis coli.
Apc mutations activate mechanistic target of rapamycin complex 1 in mice and zebrafish
Title: Oncogenic mutations in adenomatous polyposis coli (Apc) activate mechanistic target of rapamycin complex 1 (mTORC1) in mice and zebrafish.
Mutations in APC, a negative regulator of the Wnt/ss-catenin pathway, can cause cancer as well as profound developmental defects.
Title: Progenitor expansion in apc mutants is mediated by Jak/Stat signaling.
Study shows that homozygous loss of APC causes robust upregulation of the components of the demethylase and that this impairs the proper differentiation of intestinal cells.
Title: DNA demethylase activity maintains intestinal cells in an undifferentiated state following loss of APC.
Data show a loss of adenomatous polyposis coli (apc) results in an expanded ciliary marginal zone in the zebrafish eye.
Title: Loss of adenomatous polyposis coli (apc) results in an expanded ciliary marginal zone in the zebrafish eye.
Apc1-mediated restriction of Wnt/beta-catenin signalling is required for maintenance of local organizers and tectal integrity.
Title: Apc1 is required for maintenance of local brain organizers and dorsal midbrain survival.
These data demonstrate that Apc1 function is required for correct patterning of the retina and proper retinal ganglion axon projections.
Title: Apc1-mediated antagonism of Wnt/beta-catenin signaling is required for retino-tectal pathfinding in the zebrafish.
zebrafish that are heterozygous for a truncating denomatous polyposis coli mutation spontaneously develop intestinal, hepatic and pancreatic neoplasias [Adenomatous polyposis coli]
Title: Adenomatous polyposis coli-deficient zebrafish are susceptible to digestive tract neoplasia.
These studies reveal an important and time-dependent role for wnt signaling during liver development and regeneration.
Title: APC mutant zebrafish uncover a changing temporal requirement for wnt signaling in liver development.
APC control of retinoic acid biosynthesis is critical for zebrafish intestinal development and differentiation
Title: Adenomatous polyposis coli control of retinoic acid biosynthesis is critical for zebrafish intestinal development and differentiation.

Submit: New GeneRIF Correction See all GeneRIFs (11)

Interactions

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Products	Interactant	Other Gene	Complex	Source	Pubs	Description

General gene information

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Gene Ontology Provided by ZFIN

Function	Evidence Code	Pubs
enables beta-catenin binding	IBA Inferred from Biological aspect of Ancestor more info	PubMed
enables beta-catenin binding	IEA Inferred from Electronic Annotation more info
enables beta-catenin binding	ISS Inferred from Sequence or Structural Similarity more info
enables gamma-catenin binding	IBA Inferred from Biological aspect of Ancestor more info	PubMed
enables microtubule binding	IBA Inferred from Biological aspect of Ancestor more info	PubMed
enables microtubule binding	IEA Inferred from Electronic Annotation more info
enables microtubule binding	ISS Inferred from Sequence or Structural Similarity more info
enables protein kinase regulator activity	ISS Inferred from Sequence or Structural Similarity more info

Process	Evidence Code	Pubs
acts_upstream_of_or_within DNA damage response	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within Wnt signaling pathway	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within Wnt signaling pathway	ISS Inferred from Sequence or Structural Similarity more info
acts_upstream_of_or_within Wnt signaling pathway involved in somitogenesis	IGI Inferred from Genetic Interaction more info	PubMed
involved_in cell fate specification	IBA Inferred from Biological aspect of Ancestor more info	PubMed
involved_in cell migration	IBA Inferred from Biological aspect of Ancestor more info	PubMed
acts_upstream_of_or_within cell migration	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within digestive system development	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of_or_within digestive tract development	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of_positive_effect digestive tract development	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of_or_within embryonic heart tube development	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of_or_within embryonic pectoral fin morphogenesis	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of_or_within endocardium development	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of_or_within endocrine pancreas development	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of_or_within endodermal digestive tract morphogenesis	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of_or_within epithelial cell differentiation	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of_or_within exocrine pancreas development	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of_or_within eye photoreceptor cell differentiation	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of_or_within fin morphogenesis	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of_or_within heart jogging	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of_or_within heart looping	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of_or_within heart valve development	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of_or_within hepatocyte differentiation	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of_or_within liver development	IGI Inferred from Genetic Interaction more info	PubMed
acts_upstream_of_or_within liver development	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of_or_within midbrain-hindbrain boundary development	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of_or_within mitotic cytokinesis	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within muscle cell development	IGI Inferred from Genetic Interaction more info	PubMed
acts_upstream_of_or_within negative regulation of Wnt signaling pathway	IEA Inferred from Electronic Annotation more info
involved_in negative regulation of canonical Wnt signaling pathway	IBA Inferred from Biological aspect of Ancestor more info	PubMed
acts_upstream_of_or_within negative regulation of canonical Wnt signaling pathway	IGI Inferred from Genetic Interaction more info	PubMed
involved_in negative regulation of canonical Wnt signaling pathway	IGI Inferred from Genetic Interaction more info	PubMed
acts_upstream_of_or_within negative regulation of canonical Wnt signaling pathway	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of_or_within negative regulation of canonical Wnt signaling pathway involved in heart development	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of_or_within negative regulation of cell population proliferation	IEA Inferred from Electronic Annotation more info
involved_in negative regulation of microtubule depolymerization	IBA Inferred from Biological aspect of Ancestor more info	PubMed
acts_upstream_of_or_within negative regulation of microtubule depolymerization	IEA Inferred from Electronic Annotation more info
involved_in nervous system development	IBA Inferred from Biological aspect of Ancestor more info	PubMed
acts_upstream_of_or_within otic vesicle development	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of_or_within pancreas development	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in pattern specification process	IBA Inferred from Biological aspect of Ancestor more info	PubMed
acts_upstream_of_or_within positive regulation of apoptotic process	IEA Inferred from Electronic Annotation more info
involved_in positive regulation of protein catabolic process	IBA Inferred from Biological aspect of Ancestor more info	PubMed
acts_upstream_of_or_within posterior lateral line neuromast primordium migration	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of_or_within regulation of DNA methylation	IGI Inferred from Genetic Interaction more info	PubMed
acts_upstream_of_or_within regulation of DNA methylation	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of_or_within regulation of cell cycle	IEA Inferred from Electronic Annotation more info
involved_in regulation of cell differentiation	IBA Inferred from Biological aspect of Ancestor more info	PubMed
acts_upstream_of_or_within regulation of retinoic acid biosynthetic process	IGI Inferred from Genetic Interaction more info	PubMed
acts_upstream_of_or_within retina development in camera-type eye	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of_or_within retinal ganglion cell axon guidance	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of_or_within retinoic acid receptor signaling pathway	IGI Inferred from Genetic Interaction more info	PubMed
acts_upstream_of_or_within skeletal system development	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in somitogenesis	IGI Inferred from Genetic Interaction more info	PubMed
acts_upstream_of_or_within spindle organization	ISS Inferred from Sequence or Structural Similarity more info
acts_upstream_of_or_within superior colliculus development	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of_or_within zona limitans intrathalamica formation	IMP Inferred from Mutant Phenotype more info	PubMed

Component	Evidence Code	Pubs
part_of beta-catenin destruction complex	IBA Inferred from Biological aspect of Ancestor more info	PubMed
part_of beta-catenin destruction complex	ISS Inferred from Sequence or Structural Similarity more info
part_of catenin complex	IBA Inferred from Biological aspect of Ancestor more info	PubMed
located_in centrosome	ISS Inferred from Sequence or Structural Similarity more info
located_in cytoplasm	IEA Inferred from Electronic Annotation more info
located_in cytoplasm	ISS Inferred from Sequence or Structural Similarity more info
colocalizes_with cytoplasmic microtubule	IBA Inferred from Biological aspect of Ancestor more info	PubMed
located_in growth cone	ISS Inferred from Sequence or Structural Similarity more info
located_in kinetochore	ISS Inferred from Sequence or Structural Similarity more info
located_in lateral plasma membrane	ISS Inferred from Sequence or Structural Similarity more info
located_in nucleus	IEA Inferred from Electronic Annotation more info
located_in nucleus	ISS Inferred from Sequence or Structural Similarity more info

General protein information

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Preferred Names: adenomatous polyposis coli protein

Names: adenomatosis polyposis coli; adenomatous polyposis coli

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_001143840.1 → NP_001137312.1 adenomatous polyposis coli protein

Status: VALIDATED

Source sequence(s)

CU861476, CU915637

UniProtKB/TrEMBL

A0A0R4IWH7, A0A8M1NSU1

Related

ENSDARP00000139275.1, ENSDART00000158897.2

Conserved Domains (14) summary

cd00020
Location:604 → 725

ARM; Armadillo/beta-catenin-like repeats. An approximately 40 amino acid long tandemly repeated sequence motif first identified in the Drosophila segment polarity gene armadillo; these repeats were also found in the mammalian armadillo homolog beta-catenin, ...

pfam05923
Location:1608 → 1632

APC_crr; APC cysteine-rich region

pfam05924
Location:1981 → 2000

SAMP; SAMP Motif

pfam05937
Location:2593 → 2754

EB1_binding; EB-1 Binding Domain

pfam05956
Location:2172 → 2506

APC_basic; APC basic domain

pfam11414
Location:119 → 198

Suppressor_APC; Adenomatous polyposis coli tumour suppressor protein

pfam16629
Location:726 → 996

Arm_APC_u3; Armadillo-associated region on APC

pfam16630
Location:1013 → 1111

APC_u5; Unstructured region on APC between 1st and 2nd catenin-bdg motifs

pfam16633
Location:1264 → 1341

APC_u9; Unstructured region on APC between 1st two creatine-rich regions

pfam16634
Location:1633 → 1684

APC_u13; Unstructured region on APC between APC_crr and SAMP

pfam16635
Location:1705 → 1804

APC_u14; Unstructured region on APC between SAMP and APC_crr

pfam16636
Location:1838 → 1893

APC_u15; Unstructured region on APC between APC_crr regions 5 and 6

pfam16689
Location:4 → 55

APC_N_CC; Coiled-coil N-terminus of APC, dimerization domain

sd00043
Location:459 → 502

ARM; armadillo repeat [structural motif]

RefSeqs of Annotated Genomes: Danio rerio Annotation Release 106 details...

The following sections contain reference sequences that belong to a specific genome build. Explain

Reference GRCz11 Primary Assembly

Genomic

NC_007121.7 Reference GRCz11 Primary Assembly

Range

1829489..1893095

Download

GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

XM_017357938.2 → XP_017213427.1 adenomatous polyposis coli protein isoform X1

UniProtKB/TrEMBL

F8W4Z3

Conserved Domains (14) summary

cd00020
Location:595 → 716

ARM; Armadillo/beta-catenin-like repeats. An approximately 40 amino acid long tandemly repeated sequence motif first identified in the Drosophila segment polarity gene armadillo; these repeats were also found in the mammalian armadillo homolog beta-catenin, ...

pfam05923
Location:1599 → 1623

APC_crr; APC cysteine-rich region

pfam05924
Location:1972 → 1991

SAMP; SAMP Motif

pfam05937
Location:2584 → 2745

EB1_binding; EB-1 Binding Domain

pfam05956
Location:2163 → 2497

APC_basic; APC basic domain

pfam11414
Location:119 → 198

Suppressor_APC; Adenomatous polyposis coli tumour suppressor protein

pfam16629
Location:717 → 987

Arm_APC_u3; Armadillo-associated region on APC

pfam16630
Location:1004 → 1102

APC_u5; Unstructured region on APC between 1st and 2nd catenin-bdg motifs

pfam16633
Location:1255 → 1332

APC_u9; Unstructured region on APC between 1st two creatine-rich regions

pfam16634
Location:1624 → 1675

APC_u13; Unstructured region on APC between APC_crr and SAMP

pfam16635
Location:1696 → 1795

APC_u14; Unstructured region on APC between SAMP and APC_crr

pfam16636
Location:1829 → 1884

APC_u15; Unstructured region on APC between APC_crr regions 5 and 6

pfam16689
Location:4 → 55

APC_N_CC; Coiled-coil N-terminus of APC, dimerization domain

sd00043
Location:450 → 493

ARM; armadillo repeat [structural motif]
XM_005155523.4 → XP_005155580.1 adenomatous polyposis coli protein isoform X1

UniProtKB/TrEMBL

F8W4Z3

Related

ENSDARP00000123835.1, ENSDART00000149956.3

Conserved Domains (14) summary

cd00020
Location:595 → 716

ARM; Armadillo/beta-catenin-like repeats. An approximately 40 amino acid long tandemly repeated sequence motif first identified in the Drosophila segment polarity gene armadillo; these repeats were also found in the mammalian armadillo homolog beta-catenin, ...

pfam05923
Location:1599 → 1623

APC_crr; APC cysteine-rich region

pfam05924
Location:1972 → 1991

SAMP; SAMP Motif

pfam05937
Location:2584 → 2745

EB1_binding; EB-1 Binding Domain

pfam05956
Location:2163 → 2497

APC_basic; APC basic domain

pfam11414
Location:119 → 198

Suppressor_APC; Adenomatous polyposis coli tumour suppressor protein

pfam16629
Location:717 → 987

Arm_APC_u3; Armadillo-associated region on APC

pfam16630
Location:1004 → 1102

APC_u5; Unstructured region on APC between 1st and 2nd catenin-bdg motifs

pfam16633
Location:1255 → 1332

APC_u9; Unstructured region on APC between 1st two creatine-rich regions

pfam16634
Location:1624 → 1675

APC_u13; Unstructured region on APC between APC_crr and SAMP

pfam16635
Location:1696 → 1795

APC_u14; Unstructured region on APC between SAMP and APC_crr

pfam16636
Location:1829 → 1884

APC_u15; Unstructured region on APC between APC_crr regions 5 and 6

pfam16689
Location:4 → 55

APC_N_CC; Coiled-coil N-terminus of APC, dimerization domain

sd00043
Location:450 → 493

ARM; armadillo repeat [structural motif]