Gm12999 Gene Detail

Summary

• Symbol
  Gm12999
• Name
  predicted gene 12999

• Feature Type
  lncRNA gene
• IDs
  MGI:3651167
• Alliance
  gene page
• Transcription Start Sites
  3 TSS

Location &
Maps

• Sequence Map
  Chr4:132259968-132261144 bp, + strand

  From Ensembl annotation of GRCm39
  

• View this region in JBrowse
  

• Genome Browsers
  Ensembl | UCSC | NCBI

• Genetic Map
  Chromosome 4, 65.51 cM

Strain
Comparison

• SNPs within 2kb
  128 from dbSNP Build 142
• Strain Annotations
  18

Strain	Gene Model ID	Feature Type	Coordinates
C57BL/6J	MGI_C57BL6J_3651167	lncRNA gene	Chr4:132259968-132261144 (+)
129S1/SvImJ	MGP_129S1SvImJ_G0003968	antisense lncRNA gene	Chr4:134698081-134698995 (+)
A/J	MGP_AJ_G0003949	antisense lncRNA gene	Chr4:129095435-129096349 (+)
AKR/J	MGP_AKRJ_G0003926	antisense lncRNA gene	Chr4:132728600-132729514 (+)
BALB/cJ	MGP_BALBcJ_G0003935	antisense lncRNA gene	Chr4:129715230-129716144 (+)
C3H/HeJ	MGP_C3HHeJ_G0003882	antisense lncRNA gene	Chr4:132993943-132994857 (+)
C57BL/6NJ	MGP_C57BL6NJ_G0004083	antisense lncRNA gene	Chr4:139563620-139564534 (+)
CAROLI/EiJ	MGP_CAROLIEiJ_G0003570	antisense lncRNA gene	Chr4:122172867-122173780 (+)
CAST/EiJ	MGP_CASTEiJ_G0003845	antisense lncRNA gene	Chr4:131070976-131071890 (+)
CBA/J	MGP_CBAJ_G0003875	antisense lncRNA gene	Chr4:143138618-143139532 (+)
DBA/2J	MGP_DBA2J_G0003891	antisense lncRNA gene	Chr4:129516337-129517251 (+)
FVB/NJ	MGP_FVBNJ_G0003910	antisense lncRNA gene	Chr4:128367435-128368349 (+)
LP/J	MGP_LPJ_G0003971	antisense lncRNA gene	Chr4:134854223-134855137 (+)
NOD/ShiLtJ	MGP_NODShiLtJ_G0003898	antisense lncRNA gene	Chr4:147729693-147730607 (+)
NZO/HlLtJ	MGP_NZOHlLtJ_G0004078	antisense lncRNA gene	Chr4:133142224-133143138 (+)
PWK/PhJ	MGP_PWKPhJ_G0003799	antisense lncRNA gene	Chr4:126209520-126210434 (+)
SPRET/EiJ	MGP_SPRETEiJ_G0003745	antisense lncRNA gene	Chr4:128989610-128990523 (+)
WSB/EiJ	MGP_WSBEiJ_G0003881	antisense lncRNA gene	Chr4:133320235-133321148 (+)

Homology

• Gene Tree
  Gm12999
  

Mutations,
Alleles, and
Phenotypes

• Phenotype Summary
  7 phenotype references
  

• All Mutations and Alleles
  87
• Chemically induced (other)
  2
• Gene trapped
  83
• Radiation induced
  1
• Targeted
  1
• Genomic Mutations
  4 involving Gm12999
• Find Mice (IMSR)
  1 strains or lines available

Gene Ontology
(GO)
Classifications

Expression

• Assay Results
  715
• Tissues
  8
• Literature Summary
  1

Tissue x Stage Matrix

• Other Mouse Links
  Expression Atlas

Sequences &
Gene Models

• All Sequences
  21

• Ensembl
  ENSMUSG00000087352 (Evidence)

Representative Sequences			Length	Strain/Species
genomic	ENSMUSG00000087352	Ensembl Gene Model | MGI Sequence Detail	1177	C57BL/6J
transcript	ENSMUST00000247121	Ensembl | MGI Sequence Detail	1171	Not Applicable

Molecular
Reagents

• All nucleic 1

  Primer pair 1

References

• Summaries
  All 12

  Developmental Gene Expression 1

  Phenotypes 7
• Earliest
  J:84714 Nishijima I, et al., Two new balancer chromosomes on mouse chromosome 4 to facilitate functional annotation of human chromosome 1p. Genesis. 2003 Jul;36(3):142-8
• Latest
  J:263878 Aboudehen K, et al., Long noncoding RNA Hoxb3os is dysregulated in autosomal dominant polycystic kidney disease and regulates mTOR signaling. J Biol Chem. 2018 Jun 15;293(24):9388-9398

TSS for Gm12999:

(View these features in JBrowse)

Transcription Start Site	Location	Distance from Gene 5'-end
Tssr39373	Chr4:132258050-132258065 (+)	-1,910 bp
Tssr39374	Chr4:132259985-132260012 (+)	31 bp
Tssr39375	Chr4:132260020-132260035 (+)	60 bp