Gm5616 Pseudogene Detail

Summary

• Symbol
  Gm5616
• Name
  predicted gene 5616

• Feature Type
  pseudogene
• IDs
  MGI:3646416
  NCBI Gene: 434401
• Alliance
  gene page
• Transcription Start Sites
  4 TSS

Location &
Maps

• Sequence Map
  Chr9:48361700-48362083 bp, + strand

  From Ensembl annotation of GRCm39
  

• View this region in JBrowse
  

• Genome Browsers
  Ensembl | UCSC | NCBI

• Genetic Map
  Chromosome 9, 26.42 cM
• Mapping Data
  1 experiment

Strain
Comparison

• SNPs within 2kb
  44 from dbSNP Build 142
• Strain Annotations
  14

Strain	Gene Model ID	Feature Type	Coordinates
C57BL/6J	MGI_C57BL6J_3646416	pseudogene	Chr9:48361591-48362846 (+)
129S1/SvImJ	MGP_129S1SvImJ_G0031223	protein coding gene	Chr6:125371573-125372183 (+)
A/J	MGP_AJ_G0025800	protein coding gene	Chr2:68719042-68719528 (-)
AKR/J	MGP_AKRJ_G0034668	protein coding gene	Chr9:46781911-46783105 (+)
BALB/cJ	MGP_BALBcJ_G0034732	protein coding gene	Chr9:45544294-45545446 (+)
C3H/HeJ	MGP_C3HHeJ_G0033682	protein coding gene	Chr8:100848204-100848636 (+)
C57BL/6NJ	no annotation
CAROLI/EiJ	MGP_CAROLIEiJ_G0023195	protein coding gene	Chr2:11287665-11290801 (-)
CAST/EiJ	MGP_CASTEiJ_G0030310	protein coding gene	Chr6:124143046-124143896 (+)
CBA/J	MGP_CBAJ_G0025535	protein coding gene	Chr2:76394063-76394529 (-)
DBA/2J	MGP_DBA2J_G0028935	protein coding gene	Chr4:145935118-145935744 (-)
FVB/NJ	MGP_FVBNJ_G0023435	protein coding gene	Chr17:33494363-33495721 (+)
LP/J	no annotation
NOD/ShiLtJ	MGP_NODShiLtJ_G0025658	protein coding gene	Chr2:78363627-78368209 (-)
NZO/HlLtJ	MGP_NZOHlLtJ_G0024049	protein coding gene	Chr17:34615891-34616387 (-)
PWK/PhJ	no annotation
SPRET/EiJ	MGP_SPRETEiJ_G0024567	protein coding gene	Chr2:70902844-70903330 (-)
WSB/EiJ	no annotation

Homology

• Gene Tree
  Gm5616
  

Expression

• Assay Results
  706

Tissue x Stage Matrix

• Other Mouse Links
  Expression Atlas

Sequences &
Gene Models

• All Sequences
  18
• RefSeq
  1

• Ensembl
  ENSMUSG00000063543 (Evidence)
• NCBI Gene
  434401

Representative Sequences			Length	Strain/Species
genomic	ENSMUSG00000063543	Ensembl Gene Model | MGI Sequence Detail	384	C57BL/6J
transcript	ENSMUST00000165252	Ensembl | MGI Sequence Detail	384	Not Applicable

References

• Summaries
  All 4
• Earliest
  J:23000 MGD Nomenclature Committee, Nomenclature Committee Use. 1995-02-14;
• Latest
  J:91388 Mouse Genome Informatics Scientific Curators, Obtaining and Loading Genome Assembly Coordinates from Ensembl Annotations. 2005;

TSS for Gm5616:

(View these features in JBrowse)

Transcription Start Site	Location	Distance from Gene 5'-end
Tssr84983	Chr9:48361560-48361568 (+)	-136 bp
Tssr84984	Chr9:48361585-48361594 (+)	-110 bp
Tssr84985	Chr9:48361595-48361624 (+)	-90 bp
Tssr84986	Chr9:48361627-48361636 (+)	-68 bp