Gm5893 Gene Detail

Summary

• Symbol
  Gm5893
• Name
  predicted gene 5893

• Feature Type
  lncRNA gene
  BioType Conflict
  
• IDs
  MGI:3645761
  NCBI Gene: 545936
• Alliance
  genome feature page
• Transcription Start Sites
  4 TSS

Location &
Maps

• Sequence Map
  Chr7:24518220-24539700 bp, + strand

  From NCBI annotation of GRCm39
  

• View this region in JBrowse
  

• Genome Browsers
  Ensembl | UCSC | NCBI

• Genetic Map
  Chromosome 7, 13.02 cM
• Mapping Data
  1 experiment

Strain
Comparison

• SNPs within 2kb
  702 from dbSNP Build 142
• Strain Annotations
  34

Strain	Gene Model ID	Feature Type	Coordinates
C57BL/6J	MGI_C57BL6J_3645761	lncRNA gene	Chr7:24518220-24539700 (+)
129S1/SvImJ	ENSMUSG00200046450	lncRNA gene	Chr7:14521392-14542874 (+)
A/J	ENSMUSG00195051575	protein coding gene	Chr7:16961270-16976975 (+)
A/J	ENSMUSG00195053970	lncRNA gene	Chr7:16958012-16979494 (+)
AKR/J	ENSMUSG00220047210	protein coding gene	Chr7:27413602-27429312 (-)
AKR/J	ENSMUSG00220053751	lncRNA gene	Chr7:27411083-27432569 (-)
BALB/cJ	ENSMUSG00180054273	lncRNA gene	Chr7:15029993-15051473 (+)
BALB/cJ	ENSMUSG00180053701	protein coding gene	Chr7:15033250-15048954 (+)
C3H/HeJ	ENSMUSG00175053187	lncRNA gene	Chr7:16074181-16095662 (+)
C3H/HeJ	ENSMUSG00175050700	protein coding gene	Chr7:16077438-16093143 (+)
C57BL/6NJ	ENSMUSG00215054677	protein coding gene	Chr7:14437249-14452952 (+)
C57BL/6NJ	ENSMUSG00215054914	lncRNA gene	Chr7:14433992-14455471 (+)
CAROLI/EiJ	MGP_CAROLIEiJ_G0013781	unclassified non-coding RNA gene	Chr7:24091535-24113264 (+)
CAST/EiJ	ENSTCUG00005052981	lncRNA gene	Chr7:16134797-16156184 (+)
CAST/EiJ	ENSTCUG00005047903	protein coding gene	Chr7:16135060-16153667 (+)
CBA/J	ENSMUSG00210053291	lncRNA gene	Chr7:15259904-15281383 (+)
CBA/J	ENSMUSG00210052100	protein coding gene	Chr7:15263161-15278864 (+)
DBA/2J	ENSMUSG00185055342	lncRNA gene	Chr7:18473652-18495133 (+)
DBA/2J	ENSMUSG00185053042	protein coding gene	Chr7:18476909-18492614 (+)
FVB/NJ	ENSMUSG00205047625	protein coding gene	Chr7:15273715-15289419 (+)
FVB/NJ	ENSMUSG00205052555	lncRNA gene	Chr7:15270457-15291938 (+)
JF1/MsJ	ENSUMUG00000054046	protein coding gene	Chr7:22770449-22789143 (+)
JF1/MsJ	ENSUMUG00000057562	lncRNA gene	Chr7:22770186-22791240 (+)
LP/J	ENSMUSG00230053734	lncRNA gene	Chr7:23747590-23769071 (+)
LP/J	ENSMUSG00230053602	protein coding gene	Chr7:23750847-23766552 (+)
NOD/ShiLtJ	ENSMUSG00190052977	lncRNA gene	Chr7:14742054-14763550 (+)
NOD/ShiLtJ	ENSMUSG00190049172	protein coding gene	Chr7:14745311-14761031 (+)
NZO/HlLtJ	ENSMUSG00225027114	lncRNA gene	Chr7:22415695-22437175 (+)
PWK/PhJ	ENSLUMG00010052374	lncRNA gene	Chr7:14704797-14725865 (+)
PWK/PhJ	ENSLUMG00010042591	protein coding gene	Chr7:14705060-14723768 (+)
SPRET/EiJ	ENSMSPG00010051790	lncRNA gene	Chr7:14372528-14393960 (+)
SPRET/EiJ	ENSMSPG00010050215	protein coding gene	Chr7:14372786-14391458 (+)
WSB/EiJ	ENSIUOG00005052734	lncRNA gene	Chr7:9230216-9251694 (+)
WSB/EiJ	ENSIUOG00005052027	protein coding gene	Chr7:9233472-9249175 (+)

Homology

• Gene Tree
  Gm5893
  

Mutations,
Alleles, and
Phenotypes

• Phenotype Summary
  2 phenotype references
  

• All Mutations and Alleles
  1
• Gene trapped
  1
• Find Mice (IMSR)
  1 strains or lines available

Expression

• Assay Results
  597
• cDNA Data
  10

Tissue x Stage Matrix

• Other Mouse Links
  GEO
  Expression Atlas

Sequences &
Gene Models

• All Sequences
  46
• RefSeq
  1
• UniProt
  3

• Ensembl
  ENSMUSG00000011350 (Evidence)
• NCBI Gene
  545936

Representative Sequences			Length	Strain/Species
genomic	545936	NCBI Gene Model | MGI Sequence Detail	21481	C57BL/6J
transcript	NR_045096	RefSeq | MGI Sequence Detail	1906	Not Specified
polypeptide	A0AAA9WW42	UniProt | EBI | MGI Sequence Detail	471	Not Applicable

Protein
Information

• UniProt
  3 Sequences
• InterPro Domains
  IPR050831 Carcinoembryonic antigen-related cell adhesion
  IPR003599 Immunoglobulin domain subtype
  IPR007110 Immunoglobulin-like domain
  IPR036179 Immunoglobulin-like domain superfamily
  IPR013783 Immunoglobulin-like fold
  IPR003598 Immunoglobulin subtype 2
  IPR013106 Immunoglobulin V-set domain

Molecular
Reagents

• All nucleic 10

  cDNA 10

  
  

  Microarray probesets 1

References

• Summaries
  All 12

  Phenotypes 2
• Earliest
  J:86696 Zambrowicz BP, et al., Wnk1 kinase deficiency lowers blood pressure in mice: a gene-trap screen to identify potential targets for therapeutic intervention. Proc Natl Acad Sci U S A. 2003 Nov 25;100(24):14109-14
• Latest
  J:294042 Gimier E, et al., Methyl-donor supplementation prevents intestinal colonization by Adherent-Invasive E. coli in a mouse model of Crohn's disease. Sci Rep. 2020 Jul 31;10(1):12922

TSS for Gm5893:

(View these features in JBrowse)

Transcription Start Site	Location	Distance from Gene 5'-end
Tssr65042	Chr7:24518178-24518189 (+)	-36 bp
Tssr65043	Chr7:24518191-24518198 (+)	-25 bp
Tssr65044	Chr7:24518214-24518220 (+)	-3 bp
Tssr65045	Chr7:24524174-24524201 (+)	5,968 bp