Vrtn MGI Mouse Gene Detail - MGI:3588197 - vertebrae development associated

Symbol

Vrtn
Name

vertebrae development associated
Synonyms

7420416P09Rik

Feature Type

protein coding gene
IDs

MGI:3588197
NCBI Gene: 432677
Alliance

gene page
Transcription Start Sites

3 TSS

Sequence Map

Chr12:84687793-84698229 bp, + strand
From NCBI annotation of GRCm39
View this region in JBrowse
Genome Browsers

Ensembl | UCSC | NCBI

Genetic Map

Chromosome 12, 39.32 cM
Mapping Data

1 experiment

SNPs within 2kb

314 from dbSNP Build 142
Strain Annotations

18

For selected strains:

Strain	Gene Model ID	Feature Type	Coordinates
C57BL/6J	MGI_C57BL6J_3588197	protein coding gene	Chr12:84687793-84698229 (+)
129S1/SvImJ	MGP_129S1SvImJ_G0019942	protein coding gene	Chr12:85366479-85378128 (+)
A/J	MGP_AJ_G0019899	protein coding gene	Chr12:82135290-82146339 (+)
AKR/J	MGP_AKRJ_G0019875	protein coding gene	Chr12:84356486-84366874 (+)
BALB/cJ	MGP_BALBcJ_G0019879	protein coding gene	Chr12:82466593-82477125 (+)
C3H/HeJ	MGP_C3HHeJ_G0019685	protein coding gene	Chr12:84823991-84835666 (+)
C57BL/6NJ	MGP_C57BL6NJ_G0020330	protein coding gene	Chr12:87835283-87845715 (+)
CAROLI/EiJ	MGP_CAROLIEiJ_G0017948	protein coding gene	Chr12:79027933-79039635 (+)
CAST/EiJ	MGP_CASTEiJ_G0019234	protein coding gene	Chr12:79781895-79793238 (+)
CBA/J	MGP_CBAJ_G0019656	protein coding gene	Chr12:91216337-91229812 (+)
DBA/2J	MGP_DBA2J_G0019771	protein coding gene	Chr12:81658329-81668880 (+)
FVB/NJ	MGP_FVBNJ_G0019757	protein coding gene	Chr12:80616303-80626744 (+)
LP/J	MGP_LPJ_G0019843	protein coding gene	Chr12:85249258-85261084 (+)
NOD/ShiLtJ	MGP_NODShiLtJ_G0019796	protein coding gene	Chr12:94118028-94131562 (+)
NZO/HlLtJ	MGP_NZOHlLtJ_G0020364	protein coding gene	Chr12:83966231-83977827 (+)
PWK/PhJ	MGP_PWKPhJ_G0018998	protein coding gene	Chr12:76149228-76160628 (+)
SPRET/EiJ	MGP_SPRETEiJ_G0018793	protein coding gene	Chr12:78445359-78456669 (+)
WSB/EiJ	MGP_WSBEiJ_G0019286	protein coding gene	Chr12:84666916-84680191 (+)

Human Ortholog

VRTN, vertebrae development associated

Vertebrate Orthologs

3

Vertebrate Orthology Source

Alliance of Genome Resources

Human Ortholog

VRTN, vertebrae development associated
Synonyms

C14orf115, vertnin
Links

HGNC:20223

NCBI Gene ID: 55237

neXtProt AC: NX_Q9H8Y1

UniProt: Q9H8Y1
Chr Location

14q24.3; chr14:74302993-74360008 (+) GRCh38

MGI Vertebrate Homology

Vrtn stringent orthology
1 human;1 mouse;1 rat;1 zebrafish
HCOP

vertebrate homology predictions: VRTN
Gene Tree

Vrtn

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Phenotype Summary

9 phenotypes from 1 allele in 1 genetic background
9 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

7
Chemically induced (other)

1
Endonuclease-mediated

3
Gene trapped

2
Targeted

1
Genomic Mutations

1 involving Vrtn
Incidental Mutations

Mutagenetix , APF
Find Mice (IMSR)

28 strains or lines available
Comparison Matrix

Gene Expression + Phenotype

Mice homozygous for a null allele exhibit delayed embryonic development, impaires somite formation, failure to initate turning and lethality between E10.5 and E11.5. Mice heterozygous for the allele exhibit kyphosis, decreased thoracic vertebrae numbers and missing rib.

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All GO Annotations

5
GO References

3

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	membraneless 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

706
cDNA Data

9

Tissue x Stage Matrix

Comparison Matrix

Gene Expression + Phenotype

Other Mouse Links

Allen Institute

GEO

Expression Atlas
Other Vertebrate Links

ZFIN vrtn

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All Sequences

43
RefSeq

6
UniProt

4
CCDS

CCDS26048.1

Ensembl

ENSMUSG00000071235 (Evidence)
NCBI Gene

432677

			Length	Strain/Species	Flank
genomic	432677	NCBI Gene Model \| MGI Sequence Detail	10437	C57BL/6J	± kb
transcript	NM_001168588	RefSeq \| MGI Sequence Detail	3440	C57BL/6
polypeptide	Q3SYK4	UniProt \| EBI \| MGI Sequence Detail	740	Not Applicable

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UniProt

4 Sequences
Protein Ontology

PR:000032402 vertnin

(term hierarchy)
InterPro Domains

IPR038822 Vertnin-like

IPR047273 Vertnin-like, ovarian tumor domain
GlyGen

Q3SYK4 3 sites, 1 O-linked glycan (3 sites)

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All nucleic 9

cDNA 9

Microarray probesets 1

Summaries

All 27

Gene Ontology 3

Phenotypes 9
Earliest

J:86696 Zambrowicz BP, et al., Wnk1 kinase deficiency lowers blood pressure in mice: a gene-trap screen to identify potential targets for therapeutic intervention. Proc Natl Acad Sci U S A. 2003 Nov 25;100(24):14109-14
Latest

J:264400 Duan Y, et al., VRTN is Required for the Development of Thoracic Vertebrae in Mammals. Int J Biol Sci. 2018;14(6):667-681

TSS for Vrtn:

(View these features in JBrowse)

Transcription Start Site	Location	Distance from Gene 5'-end
Tssr114352	Chr12:84687704-84687716 (+)	-83 bp
Tssr114353	Chr12:84687721-84687769 (+)	-48 bp
Tssr114354	Chr12:84688168-84688183 (+)	383 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)
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