Chic1 MGI Mouse Gene Detail - MGI:1344694 - cysteine-rich hydrophobic domain 1

Symbol

Chic1
Name

cysteine-rich hydrophobic domain 1
Synonyms

Brx, Gm10454

Feature Type

protein coding gene
IDs

MGI:1344694
NCBI Gene: 12212
Alliance

gene page
Transcription Start Sites

4 TSS

Sequence Map

ChrX:102400082-102439698 bp, + strand
From Ensembl annotation of GRCm39
View this region in JBrowse
Genome Browsers

Ensembl | UCSC | NCBI

Genetic Map

Chromosome X, 46.08 cM
Mapping Data

7 experiments

SNPs within 2kb

680 from dbSNP Build 142
Strain Annotations

18

For selected strains:

Strain	Gene Model ID	Feature Type	Coordinates
C57BL/6J	MGI_C57BL6J_1344694	protein coding gene	ChrX:102400009-102452698 (+)
129S1/SvImJ	MGP_129S1SvImJ_G0035983	protein coding gene	ChrX:99997598-100037202 (+)
A/J	MGP_AJ_G0035964	protein coding gene	ChrX:99935495-99976721 (+)
AKR/J	MGP_AKRJ_G0035882	protein coding gene	ChrX:102945701-102987029 (+)
BALB/cJ	MGP_BALBcJ_G0035954	protein coding gene	ChrX:98736214-98775997 (+)
C3H/HeJ	MGP_C3HHeJ_G0035660	protein coding gene	ChrX:100461734-100502976 (+)
C57BL/6NJ	MGP_C57BL6NJ_G0036480	protein coding gene	ChrX:102965804-103005631 (+)
CAROLI/EiJ	MGP_CAROLIEiJ_G0033308	protein coding gene	ChrX:97580359-97617539 (+)
CAST/EiJ	MGP_CASTEiJ_G0034946	protein coding gene	ChrX:84730852-84774109 (+)
CBA/J	MGP_CBAJ_G0035635	protein coding gene	ChrX:106135227-106179251 (+)
DBA/2J	MGP_DBA2J_G0035789	protein coding gene	ChrX:99181833-99221686 (+)
FVB/NJ	MGP_FVBNJ_G0035730	protein coding gene	ChrX:98484114-98525048 (+)
LP/J	MGP_LPJ_G0035882	protein coding gene	ChrX:101017674-101057652 (+)
NOD/ShiLtJ	MGP_NODShiLtJ_G0035762	protein coding gene	ChrX:110794256-110836866 (+)
NZO/HlLtJ	MGP_NZOHlLtJ_G0036506	protein coding gene	ChrX:99685405-99726688 (+)
PWK/PhJ	MGP_PWKPhJ_G0034644	protein coding gene	ChrX:82315567-82353591 (+)
SPRET/EiJ	MGP_SPRETEiJ_G0034472	protein coding gene	ChrX:85431457-85470533 (+)
WSB/EiJ	MGP_WSBEiJ_G0035086	protein coding gene	ChrX:98411379-98451218 (+)

Human Ortholog

CHIC1, cysteine rich hydrophobic domain 1

Vertebrate Orthologs

3

Vertebrate Orthology Source

Alliance of Genome Resources

Human Ortholog

CHIC1, cysteine rich hydrophobic domain 1
Synonyms

BRX
Links

HGNC:1934

NCBI Gene ID: 53344

neXtProt AC: NX_Q5VXU3

UniProt: Q5VXU3
Chr Location

Xq13.2; chrX:73563148-73687111 (+) GRCh38

MGI Vertebrate Homology

Chic1 stringent orthology
1 human;1 mouse;1 rat;1 zebrafish
HCOP

vertebrate homology predictions: CHIC1
Gene Tree

Chic1

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Phenotype Summary

6 phenotypes from 2 alleles in 2 genetic backgrounds
1 images
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

9
Endonuclease-mediated

1
Gene trapped

7
Targeted

1
Find Mice (IMSR)

11 strains or lines available
Comparison Matrix

Gene Expression + Phenotype

Male chimeras hemizygous for a gene trapped allele appear normal at E9.5.

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All GO Annotations

2
GO References

2

Molecular Function

No experimental evidence to support Molecular Function annotation, following literature review. See J:73796.

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

749
Tissues

42
cDNA Data

24
Literature Summary

4

Images

Tissue x Stage Matrix

Comparison Matrix

Gene Expression + Phenotype

Other Mouse Links

GEO

Expression Atlas
Other Vertebrate Links

Xenbase chic1

ZFIN chic1

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All Sequences

48
RefSeq

8
UniProt

4
CCDS

CCDS53165.1

Ensembl

ENSMUSG00000031327 (Evidence)
NCBI Gene

12212

			Length	Strain/Species	Flank
genomic	ENSMUSG00000031327	Ensembl Gene Model \| MGI Sequence Detail	39617	C57BL/6J	± kb
transcript	ENSMUST00000116547	Ensembl \| MGI Sequence Detail	7375	Not Applicable
polypeptide	ENSMUSP00000112246	Ensembl \| MGI Sequence Detail	227	Not Applicable

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UniProt

4 Sequences
Protein Ontology

PR:000030413 cysteine-rich hydrophobic domain-containing protein 1

(term hierarchy)
InterPro Domains

IPR039735 Cysteine-rich hydrophobic domain-containing protein 1/2

IPR019383 Golgin subfamily A member 7/ERF4

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All nucleic 40

Genomic 14

cDNA 25

Primer pair 1

Microarray probesets 6

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MGI:1099205, MGI:3642521

Summaries

All 40

Developmental Gene Expression 4

Gene Ontology 2

Phenotypes 9
Earliest

J:43485 Simmler MC, et al., Localization and expression analysis of a novel conserved brain expressed transcript, Brx/BRX, lying within the Xic/XIC candidate region. Mamm Genome. 1997 Oct;8(10):760-6
Latest

J:265948 Cajigas I, et al., The Evf2 Ultraconserved Enhancer lncRNA Functionally and Spatially Organizes Megabase Distant Genes in the Developing Forebrain. Mol Cell. 2018 Sep 20;71(6):956-972.e9

TSS for Chic1:

(View these features in JBrowse)

Transcription Start Site	Location	Distance from Gene 5'-end
Tssr161716	ChrX:102400026-102400039 (+)	-49 bp
Tssr161717	ChrX:102400070-102400094 (+)	0 bp
Tssr161718	ChrX:102400097-102400119 (+)	26 bp
Tssr161719	ChrX:102400180-102400208 (+)	112 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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