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Hotair Gene Detail
Summary
  • Symbol
    Hotair
  • Name
    HOX transcript antisense RNA (non-protein coding)
Location &
Maps
more
  • Sequence Map
    Chr15:102852494-102856165 bp, - strand
    From Ensembl annotation of GRCm39
  • View this region in JBrowse
  • Genome Browsers
    Ensembl | UCSC | NCBI
  • Genetic Map
    Chromosome 15, 58.01 cM
Strain
Comparison
more
  • SNPs within 2kb
    21 from dbSNP Build 142
  • Strain Annotations
    18
For selected strains:
Strain Gene Model ID Feature Type Coordinates Select Strains
C57BL/6J MGI_C57BL6J_3826586
 lncRNA gene Chr15:102852494-102856381 (-)
129S1/SvImJ MGP_129S1SvImJ_G0005630
 lincRNA gene Chr15:105179736-105183404 (-)
A/J MGP_AJ_G0005617
 lincRNA gene Chr15:101022812-101026480 (-)
AKR/J MGP_AKRJ_G0005596
 lincRNA gene Chr15:104091987-104095725 (-)
BALB/cJ MGP_BALBcJ_G0005597
 lincRNA gene Chr15:101070435-101074103 (-)
C3H/HeJ MGP_C3HHeJ_G0005544
 lincRNA gene Chr15:104168677-104172345 (-)
C57BL/6NJ MGP_C57BL6NJ_G0005755
 lincRNA gene Chr15:109074307-109077975 (-)
CAROLI/EiJ MGP_CAROLIEiJ_G0005120
 lincRNA gene Chr15:96792343-96795984 (-)
CAST/EiJ MGP_CASTEiJ_G0005488
 lincRNA gene Chr15:105040273-105043936 (-)
CBA/J MGP_CBAJ_G0005534
 lincRNA gene Chr15:112908250-112911918 (-)
DBA/2J MGP_DBA2J_G0005549
 lincRNA gene Chr15:100293036-100296785 (-)
FVB/NJ MGP_FVBNJ_G0005576
 lincRNA gene Chr15:99362626-99366561 (-)
LP/J MGP_LPJ_G0005633
 lincRNA gene Chr15:105314864-105318532 (-)
NOD/ShiLtJ MGP_NODShiLtJ_G0005561
 lincRNA gene Chr15:116423401-116427132 (-)
NZO/HlLtJ MGP_NZOHlLtJ_G0005755
 lincRNA gene Chr15:104130671-104134334 (-)
PWK/PhJ MGP_PWKPhJ_G0005436
 lincRNA gene Chr15:100472153-100475817 (-)
SPRET/EiJ MGP_SPRETEiJ_G0005355
 lincRNA gene Chr15:103960713-103964384 (-)
WSB/EiJ MGP_WSBEiJ_G0005538
 lincRNA gene Chr15:104745702-104749366 (-)



Homology
more
  • Human Ortholog
    HOTAIR, HOX transcript antisense RNA
  • Vertebrate Orthologs
    1
Vertebrate Orthology Source
Alliance of Genome Resources
  • Human Ortholog
    HOTAIR, HOX transcript antisense RNA
  • Synonyms
    HOXAS, HOXC11-AS1, HOXC-AS4, NCRNA00072
  • Links
    NCBI Gene ID: 100124700

  • Chr Location
    12q13.13; chr12:53962308-53974956 (-)  GRCh38
Human Diseases
less
  • References
    1 with disease annotations
Mutations,
Alleles, and
Phenotypes
less
  • Phenotype Summary
    10 phenotypes from 3 alleles in 2 genetic backgrounds
    1 images
    31 phenotype references
Phenotype Overview

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.
Homozygous inactivation of this gene results in caudal vertebral transformation. Additional phenotypes may include lumbar vertebral transformation and structural malformations of the metacarpal-carpal bones, tail and hind limbs.
Gene Ontology
(GO)
Classifications
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  • All GO Annotations
    11
  • GO References
    4
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.
Expression
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Expression Overview

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
    11
  • cDNA Data
    2
  • Literature Summary
    7
  • Comparison Matrix
    Gene Expression + Phenotype
    • Sequences &
    Gene Models
    less
    • All Sequences
      25
    • RefSeq
      1
    Representative SequencesLengthStrain/SpeciesFlank
    genomic ENSMUSG00000086903 Ensembl Gene Model | MGI Sequence Detail 3672 C57BL/6J ±  kb
    transcript ENSMUST00000151949 Ensembl | MGI Sequence Detail 2009 Not Applicable  
    For the selected sequence
    Molecular
    Reagents
    less
    • All nucleic 6
      Genomic 1
      cDNA 2
      Primer pair 3
    References
    more
    • Summaries
      All 47
      Developmental Gene Expression 7
      Diseases 1
      Gene Ontology 4
      Phenotypes 31
    • Earliest
      J:7688 Lane PW, et al., Association of megacolon with a new dominant spotting gene (Dom) in the mouse. J Hered. 1984 Nov-Dec;75(6):435-9
    • Latest
      J:332729 Ma Q, et al., Inducible lncRNA transgenic mice reveal continual role of HOTAIR in promoting breast cancer metastasis. Elife. 2022 Dec 29;11
    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
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    Send questions and comments to User Support.     		last database update
    04/16/2024
    MGI 6.23     		The Jackson Laboratory