Chaserr MGI Mouse Gene Detail - MGI:1916420 - CHD2 adjacent suppressive regulatory RNA

Symbol

Chaserr
Name

CHD2 adjacent suppressive regulatory RNA
Synonyms

1810026B05Rik

Feature Type

lncRNA gene
IDs

MGI:1916420
NCBI Gene: 69170
Alliance

gene page
Transcription Start Sites

12 TSS

Sequence Map

Chr7:73189549-73208143 bp, - strand
From Ensembl annotation of GRCm39
View this region in JBrowse
Genome Browsers

Ensembl | UCSC | NCBI

Genetic Map

Chromosome 7, 42.03 cM
Mapping Data

1 experiment

SNPs within 2kb

83 from dbSNP Build 142
Strain Annotations

18

For selected strains:

Strain	Gene Model ID	Feature Type	Coordinates
C57BL/6J	MGI_C57BL6J_1916420	lncRNA gene	Chr7:73189546-73208143 (-)
129S1/SvImJ	MGP_129S1SvImJ_G0015675	unclassified non-coding RNA gene	Chr7:75102674-75121902 (-)
A/J	MGP_AJ_G0015654	unclassified non-coding RNA gene	Chr7:73417546-73436718 (-)
AKR/J	MGP_AKRJ_G0015617	unclassified non-coding RNA gene	Chr7:74950374-74969540 (-)
BALB/cJ	MGP_BALBcJ_G0015615	unclassified non-coding RNA gene	Chr7:73167812-73187616 (-)
C3H/HeJ	MGP_C3HHeJ_G0015437	unclassified non-coding RNA gene	Chr7:75721284-75740453 (-)
C57BL/6NJ	MGP_C57BL6NJ_G0016069	unclassified non-coding RNA gene	Chr7:78208516-78228879 (-)
CAROLI/EiJ	MGP_CAROLIEiJ_G0013799	unclassified non-coding RNA gene	Chr7:76048998-76068161 (-)
CAST/EiJ	MGP_CASTEiJ_G0014992	unclassified non-coding RNA gene	Chr7:66537556-66557930 (-)
CBA/J	MGP_CBAJ_G0015418	unclassified non-coding RNA gene	Chr7:80748131-80767286 (-)
DBA/2J	MGP_DBA2J_G0015513	unclassified non-coding RNA gene	Chr7:72078431-72099958 (-)
FVB/NJ	MGP_FVBNJ_G0015520	unclassified non-coding RNA gene	Chr7:72132597-72152526 (-)
LP/J	MGP_LPJ_G0015593	unclassified non-coding RNA gene	Chr7:76329535-76349318 (-)
NOD/ShiLtJ	MGP_NODShiLtJ_G0015542	unclassified non-coding RNA gene	Chr7:80883742-80908238 (-)
NZO/HlLtJ	MGP_NZOHlLtJ_G0016111	unclassified non-coding RNA gene	Chr7:74425166-74444356 (-)
PWK/PhJ	MGP_PWKPhJ_G0014774	unclassified non-coding RNA gene	Chr7:65239995-65259540 (-)
SPRET/EiJ	MGP_SPRETEiJ_G0014563	unclassified non-coding RNA gene	Chr7:61492315-61514800 (-)
WSB/EiJ	MGP_WSBEiJ_G0015097	unclassified non-coding RNA gene	Chr7:74766938-74786607 (-)

Human Ortholog

CHASERR, CHD2 adjacent suppressive regulatory RNA

Vertebrate Orthologs

1

Vertebrate Orthology Source

Alliance of Genome Resources

Human Ortholog

CHASERR, CHD2 adjacent suppressive regulatory RNA
Synonyms

LINC01578
Links

HGNC:48626

NCBI Gene ID: 100507217
Chr Location

chr15:92819540-92899701 (+) GRCh38

MGI Vertebrate Homology

Chaserr stringent orthology
1 human;1 mouse
HCOP

vertebrate homology predictions: CHASERR
Gene Tree

Chaserr

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Phenotype Summary

8 phenotypes from 2 alleles in 1 genetic background
3 phenotypes from multigenic genotypes
10 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

76
Chemically induced (other)

1
Endonuclease-mediated

2
Gene trapped

72
Radiation induced

1
Genomic Mutations

2 involving Chaserr
Find Mice (IMSR)

11 strains or lines available
Comparison Matrix

Gene Expression + Phenotype

Mice homozygous for a null allele exhibit preweaning lethality. Mice heterozygous for the allele exhibit partial postnatal lethality, reduced body weight, reduced fat mass, malocclusion, and kyphosis.

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All GO Annotations

10
GO References

1

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

735
Tissues

7
cDNA Data

4
Literature Summary

1

Images

Tissue x Stage Matrix

Comparison Matrix

Gene Expression + Phenotype

Other Mouse Links

Allen Institute

GEO

Expression Atlas

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All Sequences

38
RefSeq

1

Ensembl

ENSMUSG00000101970 (Evidence)
NCBI Gene

69170

Representative Sequences				Length	Strain/Species	Flank
	genomic	ENSMUSG00000101970	Ensembl Gene Model \| MGI Sequence Detail	18595	C57BL/6J	± kb
	transcript	ENSMUST00000184587	Ensembl \| MGI Sequence Detail	5140	Not Applicable

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All nucleic 5

cDNA 4

Primer pair 1

Microarray probesets 2

Summaries

All 22

Developmental Gene Expression 1

Gene Ontology 1

Phenotypes 10
Earliest

J:88307 Giometti CS, et al., The analysis of recessive lethal mutations in mice by using two-dimensional gel electrophoresis of liver proteins. Mutat Res. 1990 Sep;242(1):47-55
Latest

J:281371 Rom A, et al., Regulation of CHD2 expression by the Chaserr long noncoding RNA gene is essential for viability. Nat Commun. 2019 Nov 8;10(1):5092

TSS for Chaserr:

(View these features in JBrowse)

Transcription Start Site	Location	Distance from Gene 5'-end
Tssr72968	Chr7:73208235-73208282 (-)	-116 bp
Tssr72967	Chr7:73208135-73208153 (-)	-1 bp
Tssr72966	Chr7:73207693-73207714 (-)	439 bp
Tssr72965	Chr7:73207651-73207688 (-)	473 bp
Tssr72964	Chr7:73206456-73206480 (-)	1,675 bp
Tssr72963	Chr7:73206441-73206450 (-)	1,697 bp
Tssr72962	Chr7:73204725-73204740 (-)	3,410 bp
Tssr72961	Chr7:73201814-73201834 (-)	6,319 bp
Tssr72960	Chr7:73200402-73200416 (-)	7,734 bp
Tssr72959	Chr7:73200112-73200145 (-)	8,014 bp
Tssr72958	Chr7:73195842-73195846 (-)	12,299 bp
Tssr72957	Chr7:73195391-73195395 (-)	12,750 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 04/16/2024 MGI 6.23