Cdh9 MGI Mouse Gene Detail - MGI:107433

Symbol

Cdh9
Name

cadherin 9
Synonyms

T1-cadherin

Feature Type

protein coding gene
IDs

MGI:107433
NCBI Gene: 12565
Alliance

gene page
Transcription Start Sites

2 TSS

Sequence Map

Chr15:16728842-16857180 bp, + strand
From Ensembl annotation of GRCm39
View this region in JBrowse
Genome Browsers

Ensembl | UCSC | NCBI

Genetic Map

Chromosome 15, 7.91 cM
Mapping Data

1 experiment

SNPs within 2kb

3773 from dbSNP Build 142
Strain Annotations

18

For selected strains:

Strain	Gene Model ID	Feature Type	Coordinates
C57BL/6J	MGI_C57BL6J_107433	protein coding gene	Chr15:16728641-16857224 (+)
129S1/SvImJ	MGP_129S1SvImJ_G0021742	protein coding gene	Chr15:14258984-14339867 (+)
A/J	MGP_AJ_G0021702	protein coding gene	Chr15:13797504-13876679 (+)
AKR/J	MGP_AKRJ_G0021680	protein coding gene	Chr15:14148191-14233291 (+)
BALB/cJ	MGP_BALBcJ_G0021709	protein coding gene	Chr15:13754990-13840451 (+)
C3H/HeJ	MGP_C3HHeJ_G0021485	protein coding gene	Chr15:14057003-14190831 (+)
C57BL/6NJ	MGP_C57BL6NJ_G0022148	protein coding gene	Chr15:14816368-14921078 (+)
CAROLI/EiJ	MGP_CAROLIEiJ_G0019689	protein coding gene	Chr15:12902702-13023666 (+)
CAST/EiJ	MGP_CASTEiJ_G0021001	protein coding gene	Chr15:14328837-14468076 (+)
CBA/J	MGP_CBAJ_G0021454	protein coding gene	Chr15:15314407-15422678 (+)
DBA/2J	MGP_DBA2J_G0021578	protein coding gene	Chr15:13559907-13689289 (+)
FVB/NJ	MGP_FVBNJ_G0021556	protein coding gene	Chr15:13364096-13445798 (+)
LP/J	MGP_LPJ_G0021646	protein coding gene	Chr15:14216929-14299107 (+)
NOD/ShiLtJ	MGP_NODShiLtJ_G0021581	protein coding gene	Chr15:16334550-16509306 (+)
NZO/HlLtJ	MGP_NZOHlLtJ_G0022171	protein coding gene	Chr15:14199267-14275267 (+)
PWK/PhJ	MGP_PWKPhJ_G0020744	protein coding gene	Chr15:13775230-13909637 (+)
SPRET/EiJ	MGP_SPRETEiJ_G0020582	protein coding gene	Chr15:14100066-14180886 (+)
WSB/EiJ	MGP_WSBEiJ_G0021057	protein coding gene	Chr15:14094539-14232818 (+)

Human Ortholog

CDH9, cadherin 9

Vertebrate Orthologs

4

Vertebrate Orthology Source

Alliance of Genome Resources

Human Ortholog

CDH9, cadherin 9
Links

HGNC:1768

NCBI Gene ID: 1007

neXtProt AC: NX_Q9ULB4

UniProt: Q9ULB4
Chr Location

5p14.1; chr5:26880597-27121150 (-) GRCh38

MGI Vertebrate Homology

Cdh9 stringent orthology
1 human;1 mouse;1 rat;2 zebrafish
HCOP

vertebrate homology predictions: CDH9
Gene Tree

Cdh9

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Phenotype Summary

5 phenotypes from 1 allele in 2 genetic backgrounds
16 phenotype references

Phenotype Overview

Blue squares indicate phenotypes directly attributed to mutations/alleles of this gene.

adipose tissue	behavior/neurological	cardiovascular system	cellular	craniofacial	digestive/alimentary system	embryo	endocrine/exocrine glands	growth/size/body	hearing/vestibular/ear	hematopoietic system	homeostasis/metabolism	integument	immune system	limbs/digits/tail	liver/biliary system	mortality/aging	muscle	nervous system	pigmentation	renal/urinary system	reproductive system	respiratory system	skeleton	taste/olfaction	neoplasm	vision/eye

Click cells to view annotations.

All Mutations and Alleles

9
Chemically induced (other)

1
Endonuclease-mediated

4
Targeted

4
Genomic Mutations

1 involving Cdh9
Incidental Mutations

Mutagenetix , APF , CvDC
Find Mice (IMSR)

46 strains or lines available
Comparison Matrix

Gene Expression + Phenotype

Homozygous knockout results in the formation of abnormal axonal arbors in some retinal type 5 bipolar cells.

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All GO Annotations

35
GO References

5

Molecular Function

carbohydrate derivative binding	cytoskeletal protein binding	DNA binding	enzyme regulator	hydrolase	ligase	lipid binding	oxidoreductase	RNA binding	signaling receptor activity	signaling receptor binding	transcription	transferase	transporter

Biological Process

carbohydrate derivative metabolism	cell differentiation	cell population proliferation	cellular component organization	DNA-templated transcription	establishment of localization	homeostatic process	immune system process	lipid metabolic process	programmed cell death	protein metabolic process	response to stimulus	signaling	system development

Cellular Component

cell projection	cytoplasmic vesicle	cytoskeleton	cytosol	endoplasmic reticulum	endosome	extracellular region	Golgi apparatus	mitochondrion	non-membrane-bounded organelle	nucleus	organelle envelope	organelle lumen	plasma membrane	protein-containing complex	synapse	vacuole

Click cells to view annotations.

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Expression Overview

GXD's primary emphasis is on endogenous gene expression during development. Click on grid cells to view annotations.

Blue cells = expressed in wild-type.
Gray triangles = other expression annotations only
(e.g. absence of expression or data from mutants).

early conceptus	embryo ectoderm	embryo endoderm	embryo mesoderm	embryo mesenchyme	extraembryonic component	alimentary system	auditory system	branchial arches	cardiovascular system	connective tissue	endocrine system	exocrine system	hemolymphoid system	integumental system	limbs	liver and biliary system	musculoskeletal system	nervous system	olfactory system	reproductive system	respiratory system	urinary system	visual system

Click cells to view annotations.

Assay Results

939
Tissues

168
cDNA Data

9
Literature Summary

16

Images

Tissue x Stage Matrix

Comparison Matrix

Gene Expression + Phenotype

Other Mouse Links

Allen Institute

GENSAT

GEO

Expression Atlas
Other Vertebrate Links

GEISHA CDH9

Xenbase cdh9

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All Sequences

34
RefSeq

6
UniProt

2
CCDS

CCDS49584.1

Ensembl

ENSMUSG00000025370 (Evidence)
NCBI Gene

12565

			Length	Strain/Species	Flank
genomic	ENSMUSG00000025370	Ensembl Gene Model \| MGI Sequence Detail	128339	C57BL/6J	± kb
transcript	ENSMUST00000026432	Ensembl \| MGI Sequence Detail	2892	Not Applicable
polypeptide	ENSMUSP00000026432	Ensembl \| MGI Sequence Detail	788	Not Applicable

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UniProt

2 Sequences
Protein Ontology

PR:000005250 cadherin-9

(term hierarchy)
InterPro Domains

IPR039808 Cadherin

IPR020894 Cadherin conserved site

IPR002126 Cadherin-like

IPR015919 Cadherin-like superfamily

IPR000233 Cadherin, Y-type LIR-motif

IPR027397 Catenin binding domain superfamily
GlyGen

P70407 6 sites, 6 N-linked glycans (5 sites)

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All nucleic 16

cDNA 9

Primer pair 7

Microarray probesets 3

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MGD-MRK-35904

Summaries

All 49

Developmental Gene Expression 16

Gene Ontology 5

Phenotypes 16
Earliest

J:137335 Roderick TH, Chromosomal inversions in studies of mammalian mutagenesis. Genetics. 1979 May;92(1 Pt 1 Suppl):s121-6
Latest

J:345621 Adams DJ, et al., Genetic determinants of micronucleus formation in vivo. Nature. 2024 Mar;627(8002):130-136

TSS for Cdh9:

(View these features in JBrowse)

Transcription Start Site	Location	Distance from Gene 5'-end
Tssr130758	Chr15:16728993-16729007 (+)	158 bp
Tssr130759	Chr15:16825083-16825094 (+)	96,247 bp

Contributing Projects: Mouse Genome Database (MGD), Gene Expression Database (GXD), Mouse Models of Human Cancer database (MMHCdb) (formerly Mouse Tumor Biology (MTB)), Gene Ontology (GO)
Citing These Resources Funding Information Warranty Disclaimer, Privacy Notice, Licensing, & Copyright Send questions and comments to User Support.	last database update 10/29/2024 MGI 6.24