Cdh17 cadherin 17 [Rattus norvegicus (Norway rat)] - Gene

Summary

Official Symbol: Cdh17provided by RGD
Official Full Name: cadherin 17provided by RGD
Primary source: RGD:619748
See related: Ensembl:ENSRNOG00000015562 AllianceGenome:RGD:619748
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
Summary: Predicted to enable calcium ion binding activity; cell adhesion molecule binding activity; and proton-dependent oligopeptide secondary active transmembrane transporter activity. Predicted to be involved in several processes, including calcium-dependent cell-cell adhesion via plasma membrane cell adhesion molecules; cell surface receptor signaling pathway; and hematopoietic or lymphoid organ development. Located in basolateral plasma membrane. Orthologous to human CDH17 (cadherin 17). [provided by Alliance of Genome Resources, Apr 2022]
Expression: Biased expression in Liver (RPKM 60.2), Adrenal (RPKM 22.0) and 4 other tissues See more
Orthologs: human mouse all
NEW: Try the new Gene table
Try the new Transcript table

Genomic context

Location:: 5q13

Exon count:: 20

Annotation release	Status	Assembly	Chr	Location
RS_2024_02	current	GRCr8 (GCF_036323735.1)	5	NC_086023.1 (30024544..30112226)
RS_2023_06	previous assembly	mRatBN7.2 (GCF_015227675.2)	5	NC_051340.1 (25262820..25314884)
106	previous assembly	Rnor_6.0 (GCF_000001895.5)	5	NC_005104.4 (25354187..25443675)

Chromosome 5 - NC_086023.1 Genomic Context describing neighboring genes

Genomic regions, transcripts, and products

Go to the top of the page Help

Go to reference sequence details

Genomic Sequence:

Go to nucleotide: Graphics FASTA GenBank

Expression

Go to the top of the page Help

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

Go to the top of the page Help

GeneRIFs: Gene References Into Functions

What's a GeneRIF?

Submit: New GeneRIF Correction

General gene information

Go to the top of the page Help

Gene Ontology Provided by RGD

Function	Evidence Code	Pubs
enables beta-catenin binding	IBA Inferred from Biological aspect of Ancestor more info
enables cadherin binding	IBA Inferred from Biological aspect of Ancestor more info
enables calcium ion binding	IEA Inferred from Electronic Annotation more info
enables integrin binding	ISO Inferred from Sequence Orthology more info
enables proton-dependent oligopeptide secondary active transmembrane transporter activity	ISO Inferred from Sequence Orthology more info
enables proton-dependent oligopeptide secondary active transmembrane transporter activity	ISS Inferred from Sequence or Structural Similarity more info

Process	Evidence Code	Pubs
involved_in B cell differentiation	ISO Inferred from Sequence Orthology more info
NOT involved_in T cell mediated immunity	ISO Inferred from Sequence Orthology more info
involved_in adherens junction organization	IBA Inferred from Biological aspect of Ancestor more info
involved_in calcium-dependent cell-cell adhesion via plasma membrane cell adhesion molecules	IBA Inferred from Biological aspect of Ancestor more info
acts_upstream_of_or_within calcium-dependent cell-cell adhesion via plasma membrane cell adhesion molecules	ISO Inferred from Sequence Orthology more info
involved_in calcium-dependent cell-cell adhesion via plasma membrane cell adhesion molecules	ISS Inferred from Sequence or Structural Similarity more info
involved_in cell migration	IBA Inferred from Biological aspect of Ancestor more info
involved_in cell morphogenesis	IBA Inferred from Biological aspect of Ancestor more info
involved_in cell-cell adhesion mediated by cadherin	IBA Inferred from Biological aspect of Ancestor more info
involved_in cell-cell junction assembly	IBA Inferred from Biological aspect of Ancestor more info
involved_in germinal center B cell differentiation	ISO Inferred from Sequence Orthology more info
involved_in homophilic cell adhesion via plasma membrane adhesion molecules	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within homophilic cell adhesion via plasma membrane adhesion molecules	ISO Inferred from Sequence Orthology more info
involved_in homophilic cell adhesion via plasma membrane adhesion molecules	ISS Inferred from Sequence or Structural Similarity more info
involved_in integrin-mediated signaling pathway	ISO Inferred from Sequence Orthology more info
involved_in marginal zone B cell differentiation	ISO Inferred from Sequence Orthology more info
involved_in multicellular organism development	IBA Inferred from Biological aspect of Ancestor more info
involved_in oligopeptide transmembrane transport	ISS Inferred from Sequence or Structural Similarity more info
acts_upstream_of_or_within oligopeptide transport	ISO Inferred from Sequence Orthology more info
involved_in oligopeptide transport	ISS Inferred from Sequence or Structural Similarity more info
involved_in positive regulation of integrin activation by cell surface receptor linked signal transduction	ISO Inferred from Sequence Orthology more info
involved_in spleen development	ISO Inferred from Sequence Orthology more info

Component	Evidence Code	Pubs
is_active_in adherens junction	IBA Inferred from Biological aspect of Ancestor more info
located_in basolateral plasma membrane	IDA Inferred from Direct Assay more info	PubMed
located_in basolateral plasma membrane	ISO Inferred from Sequence Orthology more info
part_of catenin complex	IBA Inferred from Biological aspect of Ancestor more info
located_in cell junction	ISO Inferred from Sequence Orthology more info
located_in cell surface	ISO Inferred from Sequence Orthology more info
located_in nucleoplasm	IEA Inferred from Electronic Annotation more info
located_in nucleoplasm	ISO Inferred from Sequence Orthology more info
located_in plasma membrane	ISO Inferred from Sequence Orthology more info

General protein information

Go to the top of the page Help

Preferred Names: cadherin-17

Names: LI-cadherin; liver-intestine cadherin

NCBI Reference Sequences (RefSeq)

Go to the top of the page Help

NEW Try the new Transcript table

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_053977.2 → NP_446429.1 cadherin-17 precursor

See identical proteins and their annotated locations for NP_446429.1

Status: VALIDATED

Source sequence(s)

JAXUCZ010000005, X78997

UniProtKB/Swiss-Prot

P55281

UniProtKB/TrEMBL

A0A8I6ANM1, A6II73

Related

ENSRNOP00000021612.2, ENSRNOT00000021612.5

Conserved Domains (1) summary

cd11304
Location:569 → 662

Cadherin_repeat; Cadherin tandem repeat domain

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_086023.1 Reference GRCr8

Range

30024544..30112226

Download

GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

XM_063287080.1 → XP_063143150.1 cadherin-17 isoform X2

UniProtKB/Swiss-Prot

P55281

UniProtKB/TrEMBL

A6II73
XM_063287082.1 → XP_063143152.1 cadherin-17 isoform X2

UniProtKB/Swiss-Prot

P55281

UniProtKB/TrEMBL

A6II73
XM_063287081.1 → XP_063143151.1 cadherin-17 isoform X2

UniProtKB/Swiss-Prot

P55281

UniProtKB/TrEMBL

A6II73
XM_039109161.2 → XP_038965089.2 cadherin-17 isoform X1
XM_063287079.1 → XP_063143149.1 cadherin-17 isoform X1
XM_063287083.1 → XP_063143153.1 cadherin-17 isoform X3