Chd6 MGI Mouse Gene Detail - MGI:1918639 - chromodomain helicase DNA binding protein 6

Symbol

Chd6
Name

chromodomain helicase DNA binding protein 6
Synonyms

5430439G14Rik, 6330406J24Rik

Feature Type

protein coding gene
IDs

MGI:1918639
NCBI Gene: 71389
Alliance

gene page
Transcription Start Sites

10 TSS

Sequence Map

Chr2:160788898-160950995 bp, - strand
From Ensembl annotation of GRCm39
View this region in JBrowse
Genome Browsers

Ensembl | UCSC | NCBI

Genetic Map

Chromosome 2, 80.98 cM
Mapping Data

2 experiments

SNPs within 2kb

3485 from dbSNP Build 142
Strain Annotations

18

For selected strains:

Strain	Gene Model ID	Feature Type	Coordinates
C57BL/6J	MGI_C57BL6J_1918639	protein coding gene	Chr2:160788898-160951006 (-)
129S1/SvImJ	MGP_129S1SvImJ_G0026810	protein coding gene	Chr2:166153501-166321828 (-)
A/J	MGP_AJ_G0026776	protein coding gene	Chr2:159474439-159640795 (-)
AKR/J	MGP_AKRJ_G0026747	protein coding gene	Chr2:164193627-164364819 (-)
BALB/cJ	MGP_BALBcJ_G0026785	protein coding gene	Chr2:159788288-159954760 (-)
C3H/HeJ	MGP_C3HHeJ_G0026527	protein coding gene	Chr2:164525090-164691016 (-)
C57BL/6NJ	MGP_C57BL6NJ_G0027234	protein coding gene	Chr2:171063023-171233811 (-)
CAROLI/EiJ	MGP_CAROLIEiJ_G0024604	protein coding gene	Chr2:152848165-153006883 (-)
CAST/EiJ	MGP_CASTEiJ_G0025989	protein coding gene	Chr2:164907385-165078417 (-)
CBA/J	MGP_CBAJ_G0026504	protein coding gene	Chr2:177227038-177402800 (-)
DBA/2J	MGP_DBA2J_G0026642	protein coding gene	Chr2:158649485-158820667 (-)
FVB/NJ	MGP_FVBNJ_G0026609	protein coding gene	Chr2:157055763-157216462 (-)
LP/J	MGP_LPJ_G0026745	protein coding gene	Chr2:166256315-166431426 (-)
NOD/ShiLtJ	MGP_NODShiLtJ_G0026630	protein coding gene	Chr2:180926282-181115174 (-)
NZO/HlLtJ	MGP_NZOHlLtJ_G0027290	protein coding gene	Chr2:164030391-164198718 (-)
PWK/PhJ	MGP_PWKPhJ_G0025723	protein coding gene	Chr2:158200773-158367643 (-)
SPRET/EiJ	MGP_SPRETEiJ_G0025526	protein coding gene	Chr2:162909091-163072292 (-)
WSB/EiJ	MGP_WSBEiJ_G0026059	protein coding gene	Chr2:164920196-165088439 (-)

Human Ortholog

CHD6, chromodomain helicase DNA binding protein 6

Vertebrate Orthologs

3

Vertebrate Orthology Source

Alliance of Genome Resources

Human Ortholog

CHD6, chromodomain helicase DNA binding protein 6
Synonyms

CHD5, CHD-6, RIGB
Links

HGNC:19057

NCBI Gene ID: 84181

neXtProt AC: NX_Q8TD26

UniProt: Q8TD26
Chr Location

20q12; chr20:41402083-41618384 (-) GRCh38

MGI Vertebrate Homology

Chd6 stringent orthology
1 human;1 mouse;1 rat;1 zebrafish
HCOP

vertebrate homology predictions: CHD6
Gene Tree

Chd6

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Phenotype Summary

6 phenotypes from 2 alleles in 3 genetic backgrounds
12 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

39
Endonuclease-mediated

1
Gene trapped

32
Targeted

6
Incidental Mutations

Mutagenetix , APF , CvDC
Find Mice (IMSR)

120 strains or lines available

Homozygous null mice display impaired coordination that is not due to muscle weakness or bradykinesia.

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All GO Annotations

34
GO References

8

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

712
Tissues

3
cDNA Data

118
Literature Summary

5

Tissue x Stage Matrix

Other Mouse Links

Allen Institute

GEO

Expression Atlas
Other Vertebrate Links

Xenbase chd6

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All Sequences

97
RefSeq

22
UniProt

9
CCDS

CCDS17000.1

Ensembl

ENSMUSG00000057133 (Evidence)
NCBI Gene

71389

			Length	Strain/Species	Flank
genomic	ENSMUSG00000057133	Ensembl Gene Model \| MGI Sequence Detail	162098	C57BL/6J	± kb
transcript	ENSMUST00000039782	Ensembl \| MGI Sequence Detail	10515	Not Applicable
polypeptide	ENSMUSP00000042291	Ensembl \| MGI Sequence Detail	2711	Not Applicable

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UniProt

9 Sequences
Protein Ontology

PR:000005412 chromodomain-helicase-DNA-binding protein 6

(term hierarchy)
EC

3.6.4.12
InterPro Domains

IPR006576 BRK domain

IPR037259 BRK domain superfamily

IPR000953 Chromo/chromo shadow domain

IPR023780 Chromo domain

IPR051493 Chromodomain-helicase-DNA-binding

IPR016197 Chromo-like domain superfamily

IPR002464 DNA/RNA helicase, ATP-dependent, DEAH-box type, conserved site

IPR001650 Helicase, C-terminal domain-like

IPR014001 Helicase superfamily 1/2, ATP-binding domain

IPR027417 P-loop containing nucleoside triphosphate hydrolase

IPR038718 SNF2-like, N-terminal domain superfamily

IPR000330 SNF2, N-terminal

IPR049730 SNF2/RAD5-like, C-terminal helicase domain
GlyGen

A3KFM7 1 site, 1 O-linked glycan (1 site)

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All nucleic 118

cDNA 118

Microarray probesets 3

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MGI:1921259

Summaries

All 45

Developmental Gene Expression 5

Gene Ontology 8

Phenotypes 12
Earliest

J:65060 Kawai J, et al., Functional annotation of a full-length mouse cDNA collection. Nature. 2001 Feb 8;409(6821):685-90
Latest

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

TSS for Chd6:

(View these features in JBrowse)

Transcription Start Site	Location	Distance from Gene 5'-end
Tssr27269	Chr2:160951114-160951119 (-)	-122 bp
Tssr27268	Chr2:160950956-160951011 (-)	11 bp
Tssr27267	Chr2:160950937-160950947 (-)	53 bp
Tssr27266	Chr2:160831223-160831225 (-)	119,771 bp
Tssr27265	Chr2:160824657-160824684 (-)	126,324 bp
Tssr27264	Chr2:160824638-160824650 (-)	126,351 bp
Tssr27263	Chr2:160824618-160824629 (-)	126,371 bp
Tssr27262	Chr2:160823596-160823607 (-)	127,393 bp
Tssr27261	Chr2:160803291-160803300 (-)	147,699 bp
Tssr27260	Chr2:160792586-160792590 (-)	158,407 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 11/19/2024 MGI 6.24