Tsix MGI Mouse Gene Detail - MGI:1336196 - X (inactive)-specific transcript, opposite strand

Symbol

Tsix
Name

X (inactive)-specific transcript, opposite strand

Feature Type

antisense lncRNA gene

BioType Conflict
IDs

MGI:1336196
NCBI Gene: 22097
Alliance

genome feature page
Transcription Start Sites

4 TSS

Sequence Map

ChrX:102475123-102528563 bp, + strand
From NCBI annotation of GRCm39
View this region in JBrowse
Genome Browsers

Ensembl | UCSC | NCBI

Genetic Map

Chromosome X, 46.13 cM
Mapping Data

5 experiments

SNPs within 2kb

998 from dbSNP Build 142
Strain Annotations

19

For selected strains:

Strain	Gene Model ID	Feature Type	Coordinates
C57BL/6J	MGI_C57BL6J_1336196	antisense lncRNA gene	ChrX:102475123-102533557 (+)
129S1/SvImJ	ENSMUSG00200039083	lncRNA gene	ChrX:84239351-84293665 (+)
A/J	ENSMUSG00195040739	lncRNA gene	ChrX:87994069-88048385 (+)
AKR/J	ENSMUSG00220038391	lncRNA gene	ChrX:82661538-82716036 (+)
BALB/cJ	ENSMUSG00180042275	lncRNA gene	ChrX:84671339-84725656 (+)
C3H/HeJ	ENSMUSG00175046359	lncRNA gene	ChrX:88244204-88298514 (+)
C57BL/6NJ	ENSMUSG00215046285	lncRNA gene	ChrX:84851522-84905595 (+)
CAROLI/EiJ	MGP_CAROLIEiJ_G0004291	antisense lncRNA gene	ChrX:97655913-97706496 (+)
CAST/EiJ	ENSTCUG00005043289	lncRNA gene	ChrX:85716208-85769135 (+)
CBA/J	ENSMUSG00210046585	lncRNA gene	ChrX:85134953-85189331 (+)
DBA/2J	ENSMUSG00185045877	lncRNA gene	ChrX:97574036-97628530 (+)
FVB/NJ	ENSMUSG00205041962	lncRNA gene	ChrX:84216478-84270790 (+)
JF1/MsJ	ENSUMUG00000038197	lncRNA gene	ChrX:118183004-118236461 (+)
LP/J	ENSMUSG00230042471	lncRNA gene	ChrX:104272535-104326846 (+)
NOD/ShiLtJ	ENSMUSG00190038010	lncRNA gene	ChrX:84292828-84347141 (+)
NZO/HlLtJ	ENSMUSG00225045667	lncRNA gene	ChrX:109393117-109447159 (+)
PWK/PhJ	ENSLUMG00010037723	lncRNA gene	ChrX:83498097-83551100 (+)
SPRET/EiJ	ENSMSPG00010042858	lncRNA gene	ChrX:87704313-87755360 (+)
WSB/EiJ	ENSIUOG00005044261	lncRNA gene	ChrX:84796146-84850600 (+)

Human Ortholog

TSIX, TSIX transcript, XIST antisense RNA

Vertebrate Orthologs

1

Vertebrate Orthology Source

Alliance of Genome Resources

Human Ortholog

TSIX, TSIX transcript, XIST antisense RNA
Synonyms

LINC00013, NCRNA00013, XIST-AS, XISTAS, XIST-AS1
Links

HGNC:12377

NCBI Gene ID: 9383
Chr Location

Xq13.2; chrX:73792205-73829231 (+) GRCh38

MGI Vertebrate Homology

Tsix stringent orthology
1 human;1 mouse
HCOP

vertebrate homology predictions: TSIX
Gene Tree

Tsix

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Phenotype Summary

24 phenotypes from 4 alleles in 4 genetic backgrounds
17 phenotypes from multigenic genotypes
22 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

11
Gene trapped

3
Targeted

8
Find Mice (IMSR)

57 strains or lines available
Comparison Matrix

Gene Expression + Phenotype

Maternal transmission of a null allele in this imprinted gene prevents Xist accumulation disrupting X-inactivation and causing early embryonic lethality.

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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

658
Tissues

20
cDNA Data

3
Literature Summary

13

Images

Tissue x Stage Matrix

Comparison Matrix

Gene Expression + Phenotype

Other Mouse Links

GEO

Expression Atlas

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All Sequences

30
RefSeq

1

Ensembl

ENSMUSG00000085715 (Evidence)
NCBI Gene

22097

Representative Sequences				Length	Strain/Species	Flank
	genomic	22097	NCBI Gene Model \| MGI Sequence Detail	53441	C57BL/6J	± kb
	transcript	NR_002844	RefSeq \| MGI Sequence Detail	4306	ZRU/MplStud

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All nucleic 12

Genomic 1

cDNA 4

Primer pair 7

Microarray probesets 1

Summaries

All 68

Developmental Gene Expression 13

Phenotypes 22
Earliest

J:10451 Fingeroth JD, Comparative structure and evolution of murine CR2. The homolog of the human C3d/EBV receptor (CD21). J Immunol. 1990 May 1;144(9):3458-67
Latest

J:369802 Lou S, et al., Targeting microRNA-dependent control of X chromosome inactivation improves the Rett Syndrome phenotype. Nat Commun. 2025 Jul 4;16(1):6169

TSS for Tsix:

(View these features in JBrowse)

Transcription Start Site	Location	Distance from Gene 5'-end
Tssr161721	ChrX:102491318-102491341 (+)	16,207 bp
Tssr161722	ChrX:102491348-102491364 (+)	16,233 bp
Tssr161723	ChrX:102491391-102491402 (+)	16,274 bp
Tssr161724	ChrX:102526304-102526308 (+)	51,183 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 09/15/2026 MGI 6.29