Ctnnd1 catenin delta 1 [Rattus norvegicus (Norway rat)] - Gene

Summary

Official Symbol: Ctnnd1provided by RGD
Official Full Name: catenin delta 1provided by RGD
Primary source: RGD:1305643
See related: Ensembl:ENSRNOG00000030790 AllianceGenome:RGD:1305643
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
Also known as: P120; Catns
Summary: Enables cell adhesion molecule binding activity and protein kinase binding activity. Involved in brain development. Located in several cellular components, including growth cone; lamellipodium; and zonula adherens. Is active in several cellular components, including Schaffer collateral - CA1 synapse; hippocampal mossy fiber to CA3 synapse; and postsynaptic density, intracellular component. Biomarker of pulmonary hypertension. Human ortholog(s) of this gene implicated in blepharocheilodontic syndrome 2. Orthologous to human CTNND1 (catenin delta 1). [provided by Alliance of Genome Resources, Apr 2022]
Expression: Biased expression in Lung (RPKM 503.6), Adrenal (RPKM 458.1) and 9 other tissues See more
Orthologs: human mouse all
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Genomic context

Location:: 3q24

Exon count:: 21

Annotation release	Status	Assembly	Chr	Location
RS_2024_02	current	GRCr8 (GCF_036323735.1)	3	NC_086021.1 (90090025..90141247, complement)
RS_2023_06	previous assembly	mRatBN7.2 (GCF_015227675.2)	3	NC_051338.1 (69683328..69734550, complement)
106	previous assembly	Rnor_6.0 (GCF_000001895.5)	3	NC_005102.4 (72001904..72053047, complement)

Chromosome 3 - NC_086021.1 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?

Decreased expression of p120-catenin was detected in intracranial aneurysm endothelium.
Title: Role of Vascular Endothelial-Cadherin and p120-Catenin in the Formation of Experimental Intracranial Aneurysm in Animals.
GSK-3 interacts with and phosphorylates delta-catenin and thereby negatively affects its stability by enabling its ubiquitination/proteosome-mediated proteolysis
Title: GSK-3 phosphorylates delta-catenin and negatively regulates its stability via ubiquitination/proteosome-mediated proteolysis.
the delta-catenin signaling pathway leads to dendritic protrusions
Title: A delta-catenin signaling pathway leading to dendritic protrusions.
Results indicate that a presynaptic signaling pathway through p120ctn, Fer, SHP-2, and beta-catenin promotes excitatory synapse development and function.
Title: Synapses are regulated by the cytoplasmic tyrosine kinase Fer in a pathway mediated by p120catenin, Fer, SHP-2, and beta-catenin.
Expression of p120ctn in oligodendrocyte lineage cells suggests that p120ctn may participate in oligodendrogenesis and myelination. Subcellular distribution of p120ctn suggests that it may serve multiple functions in the CNS.
Title: Differential expression of p120 catenin in glial cells of the adult rat brain.

Submit: New GeneRIF Correction

Interactions

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Products	Interactant	Other Gene	Complex	Source	Pubs	Description

General gene information

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Markers

NoName (e-PCR)
- UniSTS:532273

Ctnnd1 (e-PCR), detects polymorphism
- UniSTS:532273

Gene Ontology Provided by RGD

Function	Evidence Code	Pubs
enables beta-catenin binding	IPI Inferred from Physical Interaction more info	PubMed
enables cadherin binding	IBA Inferred from Biological aspect of Ancestor more info
enables cadherin binding	ISO Inferred from Sequence Orthology more info
enables cell adhesion molecule binding	IPI Inferred from Physical Interaction more info	PubMed
enables protein binding	IPI Inferred from Physical Interaction more info	PubMed
enables protein domain specific binding	ISO Inferred from Sequence Orthology more info
enables protein kinase binding	IPI Inferred from Physical Interaction more info	PubMed
enables protein phosphatase binding	ISO Inferred from Sequence Orthology more info
enables protein sequestering activity	ISO Inferred from Sequence Orthology more info
enables protein tyrosine kinase binding	IPI Inferred from Physical Interaction more info	PubMed
enables signaling receptor binding	ISO Inferred from Sequence Orthology more info

Process	Evidence Code	Pubs
acts_upstream_of_or_within cell adhesion	ISO Inferred from Sequence Orthology more info
involved_in cell-cell adhesion	IBA Inferred from Biological aspect of Ancestor more info
acts_upstream_of_or_within cell-cell adhesion	ISO Inferred from Sequence Orthology more info
involved_in cell-cell adhesion mediated by cadherin	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within epithelial cell differentiation involved in salivary gland development	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within glomerulus morphogenesis	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within kidney development	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within morphogenesis of a polarized epithelium	ISO Inferred from Sequence Orthology more info
involved_in negative regulation of canonical Wnt signaling pathway	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within positive regulation of peptidyl-tyrosine autophosphorylation	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within positive regulation of protein processing	ISO Inferred from Sequence Orthology more info
involved_in protein stabilization	ISO Inferred from Sequence Orthology more info
involved_in regulation of postsynaptic membrane neurotransmitter receptor levels	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within salivary gland morphogenesis	ISO Inferred from Sequence Orthology more info

Component	Evidence Code	Pubs
is_active_in Schaffer collateral - CA1 synapse	IDA Inferred from Direct Assay more info	PubMed
is_active_in adherens junction	IBA Inferred from Biological aspect of Ancestor more info
located_in adherens junction	ISO Inferred from Sequence Orthology more info
located_in apicolateral plasma membrane	ISO Inferred from Sequence Orthology more info
located_in bicellular tight junction	ISO Inferred from Sequence Orthology more info
part_of catenin complex	ISO Inferred from Sequence Orthology more info
is_active_in cell surface	ISO Inferred from Sequence Orthology more info
located_in cell-cell junction	ISO Inferred from Sequence Orthology more info
is_active_in cytoplasm	IBA Inferred from Biological aspect of Ancestor more info
is_active_in cytoplasm	ISO Inferred from Sequence Orthology more info
located_in cytoplasm	ISO Inferred from Sequence Orthology more info
located_in cytosol	ISO Inferred from Sequence Orthology more info
located_in dendritic spine	IDA Inferred from Direct Assay more info	PubMed
part_of flotillin complex	ISO Inferred from Sequence Orthology more info
is_active_in glutamatergic synapse	IDA Inferred from Direct Assay more info	PubMed
located_in growth cone	IDA Inferred from Direct Assay more info	PubMed
is_active_in hippocampal mossy fiber to CA3 synapse	IDA Inferred from Direct Assay more info	PubMed
located_in lamellipodium	IDA Inferred from Direct Assay more info	PubMed
located_in lamellipodium	ISO Inferred from Sequence Orthology more info
located_in membrane	ISO Inferred from Sequence Orthology more info
located_in midbody	ISO Inferred from Sequence Orthology more info
is_active_in nucleus	IBA Inferred from Biological aspect of Ancestor more info
located_in nucleus	ISO Inferred from Sequence Orthology more info
is_active_in plasma membrane	IBA Inferred from Biological aspect of Ancestor more info
located_in plasma membrane	ISO Inferred from Sequence Orthology more info
is_active_in postsynaptic density, intracellular component	IDA Inferred from Direct Assay more info	PubMed
is_active_in presynaptic active zone cytoplasmic component	IDA Inferred from Direct Assay more info	PubMed
located_in zonula adherens	IDA Inferred from Direct Assay more info	PubMed

General protein information

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Preferred Names: catenin delta-1

Names: catenin (cadherin associated protein), delta 1; catenin src; p120 catenin

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_001107740.1 → NP_001101210.1 catenin delta-1

See identical proteins and their annotated locations for NP_001101210.1

Status: PROVISIONAL

Source sequence(s)

CH473949

UniProtKB/TrEMBL

A0A8I5ZVG2, A6HMQ5

Related

ENSRNOP00000082894.1, ENSRNOT00000097596.1

Conserved Domains (3) summary

smart00185
Location:397 → 437

ARM; Armadillo/beta-catenin-like repeats

sd00043
Location:368 → 393

ARM; armadillo repeat [structural motif]

pfam00514
Location:440 → 481

Arm; Armadillo/beta-catenin-like repeat

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_086021.1 Reference GRCr8

Range

90090025..90141247 complement

Download

GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

XM_063283650.1 → XP_063139720.1 catenin delta-1 isoform X13

UniProtKB/TrEMBL

A0A8I5ZVG2, A6HMQ4
XM_039104873.2 → XP_038960801.1 catenin delta-1 isoform X6

UniProtKB/TrEMBL

D3ZZZ9

Conserved Domains (3) summary

smart00185
Location:397 → 437

ARM; Armadillo/beta-catenin-like repeats

sd00043
Location:368 → 393

ARM; armadillo repeat [structural motif]

pfam00514
Location:440 → 481

Arm; Armadillo/beta-catenin-like repeat
XM_063283649.1 → XP_063139719.1 catenin delta-1 isoform X10

UniProtKB/TrEMBL

A0A8I5ZVG2
XM_063283647.1 → XP_063139717.1 catenin delta-1 isoform X4

UniProtKB/TrEMBL

D3ZZZ9
XM_039104871.2 → XP_038960799.1 catenin delta-1 isoform X3

UniProtKB/TrEMBL

D3ZZZ9

Conserved Domains (3) summary

smart00185
Location:397 → 437

ARM; Armadillo/beta-catenin-like repeats

sd00043
Location:368 → 393

ARM; armadillo repeat [structural motif]

pfam00514
Location:440 → 481

Arm; Armadillo/beta-catenin-like repeat
XM_039104877.2 → XP_038960805.1 catenin delta-1 isoform X12

UniProtKB/TrEMBL

D3ZZZ9

Conserved Domains (4) summary

smart00185
Location:397 → 437

ARM; Armadillo/beta-catenin-like repeats

cd13394
Location:632 → 740

Syo1_like; Fungal symportin 1 (syo1) and similar proteins

sd00043
Location:368 → 393

ARM; armadillo repeat [structural motif]

pfam00514
Location:440 → 481

Arm; Armadillo/beta-catenin-like repeat
XM_039104876.2 → XP_038960804.1 catenin delta-1 isoform X11

UniProtKB/TrEMBL

D3ZZZ9

Conserved Domains (4) summary

smart00185
Location:397 → 437

ARM; Armadillo/beta-catenin-like repeats

cd13394
Location:632 → 740

Syo1_like; Fungal symportin 1 (syo1) and similar proteins

sd00043
Location:368 → 393

ARM; armadillo repeat [structural motif]

pfam00514
Location:440 → 481

Arm; Armadillo/beta-catenin-like repeat
XM_039104872.2 → XP_038960800.1 catenin delta-1 isoform X5

UniProtKB/TrEMBL

D3ZZZ9

Related

ENSRNOP00000063519.2

Conserved Domains (4) summary

smart00185
Location:397 → 437

ARM; Armadillo/beta-catenin-like repeats

cd13394
Location:632 → 740

Syo1_like; Fungal symportin 1 (syo1) and similar proteins

sd00043
Location:368 → 393

ARM; armadillo repeat [structural motif]

pfam00514
Location:440 → 481

Arm; Armadillo/beta-catenin-like repeat
XM_039104875.2 → XP_038960803.1 catenin delta-1 isoform X8

UniProtKB/TrEMBL

A0A8I5ZVG2

Conserved Domains (4) summary

smart00185
Location:397 → 437

ARM; Armadillo/beta-catenin-like repeats

cd13394
Location:632 → 740

Syo1_like; Fungal symportin 1 (syo1) and similar proteins

sd00043
Location:368 → 393

ARM; armadillo repeat [structural motif]

pfam00514
Location:440 → 481

Arm; Armadillo/beta-catenin-like repeat
XM_039104874.2 → XP_038960802.1 catenin delta-1 isoform X7

UniProtKB/TrEMBL

A0A8I5ZVG2

Conserved Domains (4) summary

smart00185
Location:397 → 437

ARM; Armadillo/beta-catenin-like repeats

cd13394
Location:632 → 740

Syo1_like; Fungal symportin 1 (syo1) and similar proteins

sd00043
Location:368 → 393

ARM; armadillo repeat [structural motif]

pfam00514
Location:440 → 481

Arm; Armadillo/beta-catenin-like repeat
XM_039104870.2 → XP_038960798.1 catenin delta-1 isoform X2

UniProtKB/TrEMBL

D3ZZZ9

Conserved Domains (4) summary

smart00185
Location:397 → 437

ARM; Armadillo/beta-catenin-like repeats

cd13394
Location:632 → 740

Syo1_like; Fungal symportin 1 (syo1) and similar proteins

sd00043
Location:368 → 393

ARM; armadillo repeat [structural motif]

pfam00514
Location:440 → 481

Arm; Armadillo/beta-catenin-like repeat
XM_006234453.5 → XP_006234515.1 catenin delta-1 isoform X1

See identical proteins and their annotated locations for XP_006234515.1

UniProtKB/TrEMBL

A0A0G2JXM1, D3ZZZ9

Conserved Domains (2) summary

cd00020
Location:363 → 481

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, ...

sd00043
Location:368 → 393

ARM; armadillo repeat [structural motif]
XM_039104878.2 → XP_038960806.1 catenin delta-1 isoform X14

UniProtKB/TrEMBL

D3ZZZ9

Conserved Domains (3) summary

smart00185
Location:296 → 336

ARM; Armadillo/beta-catenin-like repeats

cd13394
Location:531 → 639

Syo1_like; Fungal symportin 1 (syo1) and similar proteins

sd00043
Location:267 → 292

ARM; armadillo repeat [structural motif]
XM_008761987.4 → XP_008760209.1 catenin delta-1 isoform X14

UniProtKB/TrEMBL

D3ZZZ9

Conserved Domains (3) summary

smart00185
Location:296 → 336

ARM; Armadillo/beta-catenin-like repeats

cd13394
Location:531 → 639

Syo1_like; Fungal symportin 1 (syo1) and similar proteins

sd00043
Location:267 → 292

ARM; armadillo repeat [structural motif]
XM_006234452.5 → XP_006234514.1 catenin delta-1 isoform X1

See identical proteins and their annotated locations for XP_006234514.1

UniProtKB/TrEMBL

A0A0G2JXM1, D3ZZZ9

Related

ENSRNOP00000070326.2

Conserved Domains (2) summary

cd00020
Location:363 → 481

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, ...

sd00043
Location:368 → 393

ARM; armadillo repeat [structural motif]
XM_063283648.1 → XP_063139718.1 catenin delta-1 isoform X9

UniProtKB/TrEMBL

A0A8I5ZVG2, A6HMQ5