Gm20478 Gene Detail

Summary

• Symbol
  Gm20478
• Name
  predicted gene 20478

• Feature Type
  lncRNA gene
• IDs
  MGI:5141943
• Alliance
  gene page
• Transcription Start Sites
  1 TSS

Location &
Maps

• Sequence Map
  Chr17:36478874-36482697 bp, + strand

  From Ensembl annotation of GRCm39
  

• View this region in JBrowse
  

• Genome Browsers
  Ensembl | UCSC | NCBI

• Genetic Map
  Chromosome 17, 18.98 cM

Strain
Comparison

• SNPs within 2kb
  11 from dbSNP Build 142
• Strain Annotations
  16

Strain	Gene Model ID	Feature Type	Coordinates
C57BL/6J	MGI_C57BL6J_5141943	lncRNA gene	Chr17:36478874-36482697 (+)
129S1/SvImJ	MGP_129S1SvImJ_G0003398	antisense lncRNA gene	Chr17:35481862-35485649 (-)
A/J	MGP_AJ_G0003382	antisense lncRNA gene	Chr17:35197957-35202719 (+)
AKR/J	MGP_AKRJ_G0003353	antisense lncRNA gene	Chr17:33184973-35608336 (+)
BALB/cJ	MGP_BALBcJ_G0003371	antisense lncRNA gene	Chr17:35440774-35445669 (+)
C3H/HeJ	MGP_C3HHeJ_G0003321	antisense lncRNA gene	Chr17:36227492-36234672 (+)
C57BL/6NJ	MGP_C57BL6NJ_G0003504	antisense lncRNA gene	Chr17:36838476-36849240 (-)
CAROLI/EiJ	MGP_CAROLIEiJ_G0003015	antisense lncRNA gene	Chr17:30335655-32934929 (+)
CAST/EiJ	no annotation
CBA/J	MGP_CBAJ_G0003312	antisense lncRNA gene	Chr17:38510229-38514012 (-)
DBA/2J	MGP_DBA2J_G0003326	antisense lncRNA gene	Chr17:34575153-34580896 (+)
FVB/NJ	MGP_FVBNJ_G0003344	antisense lncRNA gene	Chr17:34274778-34278964 (+)
LP/J	MGP_LPJ_G0003392	antisense lncRNA gene	Chr17:35807059-35811764 (-)
NOD/ShiLtJ	MGP_NODShiLtJ_G0003332	antisense lncRNA gene	Chr17:38136777-38169408 (+)
NZO/HlLtJ	MGP_NZOHlLtJ_G0003513	antisense lncRNA gene	Chr17:36023363-36025196 (+)
PWK/PhJ	no annotation
SPRET/EiJ	MGP_SPRETEiJ_G0003182	antisense lncRNA gene	Chr17:33255566-34102163 (+)
WSB/EiJ	MGP_WSBEiJ_G0003308	antisense lncRNA gene	Chr17:33547043-36339296 (+)

Homology

• Gene Tree
  Gm20478
  

Mutations,
Alleles, and
Phenotypes

• Phenotype Summary
  3 phenotype references
  

• All Mutations and Alleles
  6
• Gene trapped
  5
• Targeted
  1
• Genomic Mutations
  1 involving Gm20478
• Find Mice (IMSR)
  0 strains or lines available

Expression

• Assay Results
  706

Tissue x Stage Matrix

• Other Mouse Links
  Expression Atlas

Sequences &
Gene Models

• All Sequences
  18

• Ensembl
  ENSMUSG00000092474 (Evidence)

Representative Sequences			Length	Strain/Species
genomic	ENSMUSG00000092474	Ensembl Gene Model | MGI Sequence Detail	3824	C57BL/6J
transcript	ENSMUST00000173648	Ensembl | MGI Sequence Detail	1031	Not Applicable

References

• Summaries
  All 5

  Phenotypes 3
• Earliest
  J:142754 Hansen GM, et al., Large-scale gene trapping in C57BL/6N mouse embryonic stem cells. Genome Res. 2008 Oct;18(10):1670-9
• Latest
  J:190754 Ermakova O, et al., Construction and phenotypic analysis of mice carrying a duplication of the major histocompatibility class I (MHC-I) locus. Mamm Genome. 2012 Aug;23(7-8):443-53

TSS for Gm20478:

(View these features in JBrowse)

Transcription Start Site	Location	Distance from Gene 5'-end
Tssr144508	Chr17:36478498-36478526 (+)	-362 bp