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Sox2ot Gene Detail
Summary
  • Symbol
    Sox2ot
  • Name
    SOX2 overlapping transcript (non-protein coding)
  • Synonyms
    B230215L15Rik
  • Feature Type
    lncRNA gene
  • IDs
    MGI:2444112
    NCBI Gene: 320478
  • Gene Overview
    MyGene.info: SOX2-OT
  • Alliance
  • Transcription Start Sites
    14 TSS
Location &
Maps
more
  • Sequence Map
    Chr3:34560381-34677993 bp, + strand
  • From NCBI annotation of GRCm38

    View this region in JBrowse

  • Genome Browsers
  • Genetic Map
    Chromosome 3, 16.56 cM
  • Mapping Data
    2 experiments
Strain
Comparison
more
  • SNPs within 2kb
    450 from dbSNP Build 142
  • Strain Annotations
    18
For selected strains:
Strain Gene Model ID Feature Type Coordinates Select Strains
C57BL/6J MGI_C57BL6J_2444112
lncRNA gene Chr3:34104270-34682619 (+)
129S1/SvImJ MGP_129S1SvImJ_G0015499
unclassified non-coding RNA gene Chr3:31750992-32364628 (+)
A/J MGP_AJ_G0015476
unclassified non-coding RNA gene Chr3:31264426-31832952 (+)
AKR/J MGP_AKRJ_G0015440
unclassified non-coding RNA gene Chr3:31790554-32385100 (+)
BALB/cJ MGP_BALBcJ_G0015439
unclassified non-coding RNA gene Chr3:30907507-31492604 (+)
C3H/HeJ MGP_C3HHeJ_G0015262
unclassified non-coding RNA gene Chr3:31836382-32426893 (+)
C57BL/6NJ MGP_C57BL6NJ_G0015893
unclassified non-coding RNA gene Chr3:33335829-33954829 (+)
CAROLI/EiJ MGP_CAROLIEiJ_G0013631
unclassified non-coding RNA gene Chr3:29033154-29603000 (+)
CAST/EiJ MGP_CASTEiJ_G0014814
unclassified non-coding RNA gene Chr3:31666010-32276893 (+)
CBA/J MGP_CBAJ_G0015243
unclassified non-coding RNA gene Chr3:34206066-34845395 (+)
DBA/2J MGP_DBA2J_G0015337
unclassified non-coding RNA gene Chr3:30738409-31313391 (+)
FVB/NJ MGP_FVBNJ_G0015344
unclassified non-coding RNA gene Chr3:30186173-30767377 (+)
LP/J MGP_LPJ_G0015415
unclassified non-coding RNA gene Chr3:32530574-33151265 (+)
NOD/ShiLtJ MGP_NODShiLtJ_G0015368
unclassified non-coding RNA gene Chr3:36714592-37332508 (+)
NZO/HlLtJ MGP_NZOHlLtJ_G0015933
unclassified non-coding RNA gene Chr3:31588315-32175445 (+)
PWK/PhJ MGP_PWKPhJ_G0014602
unclassified non-coding RNA gene Chr3:30291281-30891154 (+)
SPRET/EiJ MGP_SPRETEiJ_G0014390
unclassified non-coding RNA gene Chr3:30986937-31591495 (+)
WSB/EiJ MGP_WSBEiJ_G0014921
unclassified non-coding RNA gene Chr3:31603797-32214117 (+)



Homology
more
  • Human Ortholog
    SOX2-OT, SOX2 overlapping transcript
  • Human Ortholog
    SOX2-OT, SOX2 overlapping transcript
    Orthology source: HGNC
  • Synonyms
    NCRNA00043, SOX2OT
  • Links
    NCBI Gene ID: 347689

  • Chr Location
    3q26.33; chr3:181056680-181742228 (+)  GRCh38.p7

Human Diseases
less
  • References
    1 with disease annotations
Mutations,
Alleles, and
Phenotypes
less
  • Phenotype Summary
    10 phenotype references
Gene Ontology
(GO)
Classifications
less
Expression
less
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
  • Tissues
  • cDNA Data
  • Literature Summary
Sequences &
Gene Models
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  • All Sequences
  • RefSeq
Representative SequencesLengthStrain/SpeciesFlank
genomic 320478 NCBI Gene Model | MGI Sequence Detail 117613 C57BL/6J ±  kb
transcript NR_015580 RefSeq | MGI Sequence Detail 2998 C57BL/6  
For the selected sequence
Molecular
Reagents
less
  • All nucleic 18
    cDNA 10
    Primer pair 6
    Other 2

    Microarray probesets 2
References
more
  • Summaries
    All 28
    Developmental Gene Expression 5
    Diseases 1
    Phenotypes 10
  • Earliest
    J:93290 Araki K, et al., Exchangeable gene trap using the Cre/mutated lox system. Cell Mol Biol (Noisy-Le-Grand). 1999 Jul;45(5):737-50
  • Latest
    J:260175 Messemaker TC, et al., Allele-specific repression of Sox2 through the long non-coding RNA Sox2ot. Sci Rep. 2018 Jan 10;8(1):386

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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last database update
06/18/2019
MGI 6.14
The Jackson Laboratory