Clns1a MGI Mouse Gene Detail - MGI:109638 - chloride channel, nucleotide-sensitive, 1A

Symbol

Clns1a
Name

chloride channel, nucleotide-sensitive, 1A
Synonyms

2610036D06Rik, 2610100O04Rik, Clci, Clcni, ICLN

Feature Type

protein coding gene
IDs

MGI:109638
NCBI Gene: 12729
Alliance

gene page
Transcription Start Sites

1 TSS

Sequence Map

Chr7:97345864-97370000 bp, + strand
From NCBI annotation of GRCm39
View this region in JBrowse
Genome Browsers

Ensembl | UCSC | NCBI

Genetic Map

Chromosome 7, 53.57 cM, cytoband E3
Mapping Data

4 experiments

SNPs within 2kb

691 from dbSNP Build 142
Strain Annotations

18
RFLP

2

For selected strains:

Strain	Gene Model ID	Feature Type	Coordinates
C57BL/6J	MGI_C57BL6J_109638	protein coding gene	Chr7:97345841-97370003 (+)
129S1/SvImJ	MGP_129S1SvImJ_G0032529	protein coding gene	Chr7:100404449-100428915 (+)
A/J	MGP_AJ_G0032503	protein coding gene	Chr7:97915150-97939902 (+)
AKR/J	MGP_AKRJ_G0032439	protein coding gene	Chr7:100251434-100276334 (+)
BALB/cJ	MGP_BALBcJ_G0032514	protein coding gene	Chr7:97605551-97629564 (+)
C3H/HeJ	MGP_C3HHeJ_G0032229	protein coding gene	Chr7:100602080-100625735 (+)
C57BL/6NJ	MGP_C57BL6NJ_G0033012	protein coding gene	Chr7:104315739-104341099 (+)
CAROLI/EiJ	MGP_CAROLIEiJ_G0030007	protein coding gene	Chr7:100362480-100387098 (+)
CAST/EiJ	MGP_CASTEiJ_G0031556	protein coding gene	Chr7:92122328-92148541 (+)
CBA/J	MGP_CBAJ_G0032196	protein coding gene	Chr7:107829683-107859871 (+)
DBA/2J	MGP_DBA2J_G0032348	protein coding gene	Chr7:96269331-96296637 (+)
FVB/NJ	MGP_FVBNJ_G0032304	protein coding gene	Chr7:96063543-96087991 (+)
LP/J	MGP_LPJ_G0032437	protein coding gene	Chr7:101725036-101749149 (+)
NOD/ShiLtJ	MGP_NODShiLtJ_G0032337	protein coding gene	Chr7:109373157-109397212 (+)
NZO/HlLtJ	MGP_NZOHlLtJ_G0033034	protein coding gene	Chr7:99533101-99557028 (+)
PWK/PhJ	MGP_PWKPhJ_G0031274	protein coding gene	Chr7:89333858-89357422 (+)
SPRET/EiJ	MGP_SPRETEiJ_G0031117	protein coding gene	Chr7:86774224-86801011 (+)
WSB/EiJ	MGP_WSBEiJ_G0031673	protein coding gene	Chr7:100175176-100199135 (+)

Human Ortholog

CLNS1A, chloride nucleotide-sensitive channel 1A

Vertebrate Orthologs

3

Vertebrate Orthology Source

Alliance of Genome Resources

Human Ortholog

CLNS1A, chloride nucleotide-sensitive channel 1A
Synonyms

CLCI, CLNS1B, ICln
Links

HGNC:2080

NCBI Gene ID: 1207

neXtProt AC: NX_P54105

UniProt: P54105
Chr Location

11q14.1; chr11:77514936-77637794 (-) GRCh38

MGI Vertebrate Homology

Clns1a stringent orthology
1 human;1 mouse;1 rat;1 zebrafish
HCOP

vertebrate homology predictions: CLNS1A
Gene Tree

Clns1a

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Phenotype Summary

2 phenotypes from 1 allele in 1 genetic background
28 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

33
Chemically induced (other)

1
Endonuclease-mediated

1
Gene trapped

26
Radiation induced

2
Targeted

3
Genomic Mutations

3 involving Clns1a
Incidental Mutations

Mutagenetix , APF
Find Mice (IMSR)

17 strains or lines available

Homozygous mutants die between E3.5-E7.5. Heterozygous mutants appear normal and healthy.

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All GO Annotations

26
GO References

9

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

724
Tissues

17
cDNA Data

14
Literature Summary

3

Tissue x Stage Matrix

Other Mouse Links

Allen Institute

GEO

Expression Atlas
Other Vertebrate Links

Xenbase clns1a

ZFIN clns1a

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All Sequences

46
RefSeq

2
UniProt

2
CCDS

CCDS21462.1

Ensembl

ENSMUSG00000025439 (Evidence)
NCBI Gene

12729

			Length	Strain/Species	Flank
genomic	12729	NCBI Gene Model \| MGI Sequence Detail	24137	C57BL/6J	± kb
transcript	NM_023671	RefSeq \| MGI Sequence Detail	3395	ZRU/MplStud
polypeptide	Q61189	UniProt \| EBI \| MGI Sequence Detail	236	Not Applicable

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UniProt

2 Sequences
Protein Ontology

PR:000005596 methylosome subunit pICln

(term hierarchy)
PDB

8G1U
InterPro Domains

IPR003521 ICln

IPR011993 PH-like domain superfamily

IPR039924 Protein ICln/Lot5/Saf5

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All nucleic 22

Genomic 2

cDNA 18

Primer pair 2

Microarray probesets 4

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MGD-MRK-39637, MGI:1917668, MGI:1919724

Summaries

All 67

Developmental Gene Expression 3

Gene Ontology 9

Phenotypes 28
Earliest

J:141526 Russell LB, et al., Analysis of the albino-locus region of the mouse. III. Time of death of prenatal lethals. Genetics. 1979 May;92(1):205-13
Latest

J:320270 Takai H, et al., 5-Hydroxymethylcytosine plays a critical role in glioblastomagenesis by recruiting the CHTOP-methylosome complex. Cell Rep. 2014 Oct 9;9(1):48-60

TSS for Clns1a:

(View these features in JBrowse)

Transcription Start Site	Location	Distance from Gene 5'-end
Tssr67987	Chr7:97345852-97345932 (+)	28 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 11/12/2024 MGI 6.24