Gm12828 Gene Detail

Summary

• Symbol
  Gm12828
• Name
  predicted gene 12828

• Feature Type
  lncRNA gene
• IDs
  MGI:3650145
  NCBI Gene: 108168973
• Alliance
  genome feature page
• Transcription Start Sites
  4 TSS

Location &
Maps

• Sequence Map
  Chr4:117300342-117303694 bp, + strand

  From NCBI annotation of GRCm39
  

• View this region in JBrowse
  

• Genome Browsers
  Ensembl | UCSC | NCBI

• Genetic Map
  Chromosome 4, 53.46 cM

Strain
Comparison

• SNPs within 2kb
  258 from dbSNP Build 142
• Strain Annotations
  19

Strain	Gene Model ID	Feature Type	Coordinates
C57BL/6J	MGI_C57BL6J_3650145	lncRNA gene	Chr4:117300342-117312237 (+)
129S1/SvImJ	ENSMUSG00200050077	lncRNA gene	Chr4:111199771-111208853 (+)
A/J	ENSMUSG00195033356	lncRNA gene	Chr4:112459839-112468974 (+)
AKR/J	ENSMUSG00220012409	lncRNA gene	Chr4:111807759-111823269 (+)
BALB/cJ	ENSMUSG00180047252	lncRNA gene	Chr4:110527816-110536883 (+)
C3H/HeJ	ENSMUSG00175042065	lncRNA gene	Chr4:111542149-111551213 (+)
C57BL/6NJ	ENSMUSG00215039219	lncRNA gene	Chr4:112627697-112636783 (+)
CAROLI/EiJ	MGP_CAROLIEiJ_G0003545	antisense lncRNA gene	Chr4:107894735-107903974 (+)
CAST/EiJ	ENSTCUG00005023024	lncRNA gene	Chr4:111326540-111335758 (+)
CBA/J	ENSMUSG00210053432	lncRNA gene	Chr4:111155848-111164915 (+)
DBA/2J	ENSMUSG00185049248	lncRNA gene	Chr4:112685419-112694551 (+)
FVB/NJ	ENSMUSG00205044508	lncRNA gene	Chr4:110625237-110634304 (+)
JF1/MsJ	ENSUMUG00000023273	lncRNA gene	Chr4:112592464-112601517 (+)
LP/J	ENSMUSG00230047308	lncRNA gene	Chr4:116016960-116026042 (+)
NOD/ShiLtJ	ENSMUSG00190048286	lncRNA gene	Chr4:110528816-110537865 (+)
NZO/HlLtJ	ENSMUSG00225011219	lncRNA gene	Chr4:121499632-121508714 (+)
PWK/PhJ	ENSLUMG00010048632	lncRNA gene	Chr4:109991378-110000458 (+)
SPRET/EiJ	ENSMSPG00010030426	lncRNA gene	Chr4:112089119-112098086 (+)
WSB/EiJ	ENSIUOG00005045048	lncRNA gene	Chr4:110846788-110855858 (+)

Homology

• Gene Tree
  Gm12828
  

Mutations,
Alleles, and
Phenotypes

• Phenotype Summary
  8 phenotype references
  

• All Mutations and Alleles
  6
• Chemically induced (other)
  2
• Gene trapped
  2
• Radiation induced
  1
• Targeted
  1
• Genomic Mutations
  4 involving Gm12828
• Find Mice (IMSR)
  0 strains or lines available

Gene Ontology
(GO)
Classifications

Expression

• Assay Results
  597

Tissue x Stage Matrix

• Other Mouse Links
  Expression Atlas

Sequences &
Gene Models

• All Sequences
  23
• RefSeq
  1

• Ensembl
  ENSMUSG00000086876 (Evidence)
• NCBI Gene
  108168973

Representative Sequences			Length	Strain/Species
genomic	108168973	NCBI Gene Model | MGI Sequence Detail	3353	C57BL/6J
transcript	XR_001784410	RefSeq | MGI Sequence Detail	3238	C57BL/6J

References

• Summaries
  All 15

  Phenotypes 8
• 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:148802 Boles MK, et al., A mouse chromosome 4 balancer ENU-mutagenesis screen isolates eleven lethal lines. BMC Genet. 2009;10:12

TSS for Gm12828:

(View these features in JBrowse)

Transcription Start Site	Location	Distance from Gene 5'-end
Tssr38612	Chr4:117302995-117303011 (+)	2,661 bp
Tssr38613	Chr4:117303020-117303032 (+)	2,684 bp
Tssr1276	Chr4:117303048-117303056 (+)	2,710 bp
Tssr38614	Chr4:117303180-117303184 (+)	2,840 bp