Prdm16os Gene Detail

Summary

• Symbol
  Prdm16os
• Name
  Prdm16 opposite strand transcript
• Synonyms
  lnc-dPrdm16

• Feature Type
  antisense lncRNA gene
  BioType Conflict
  
• IDs
  MGI:3651882
  NCBI Gene: 100042178
• Alliance
  genome feature page
• Transcription Start Sites
  3 TSS

Location &
Maps

• Sequence Map
  Chr4:154722037-154729175 bp, + strand

  From NCBI annotation of GRCm39
  

• View this region in JBrowse
  

• Genome Browsers
  Ensembl | UCSC | NCBI

• Genetic Map
  Chromosome 4, 84.69 cM

Strain
Comparison

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

Strain	Gene Model ID	Feature Type	Coordinates
C57BL/6J	MGI_C57BL6J_3651882	antisense lncRNA gene	Chr4:154722033-154729181 (+)
129S1/SvImJ	ENSMUSG00200019802	lncRNA gene	Chr4:145789221-145796375 (+)
A/J	ENSMUSG00195021173	lncRNA gene	Chr4:147444070-147451222 (+)
AKR/J	ENSMUSG00220028037	lncRNA gene	Chr4:147030675-147037827 (+)
BALB/cJ	ENSMUSG00180002755	lncRNA gene	Chr4:145104326-145111477 (+)
C3H/HeJ	ENSMUSG00175019169	lncRNA gene	Chr4:148410509-148417658 (+)
C57BL/6NJ	ENSMUSG00215028836	lncRNA gene	Chr4:147239967-147247117 (+)
CAROLI/EiJ	MGP_CAROLIEiJ_G0003614	antisense lncRNA gene	Chr4:144548516-144555756 (+)
CAST/EiJ	ENSTCUG00005036799	lncRNA gene	Chr4:151111047-151118238 (+)
CBA/J	ENSMUSG00210006457	lncRNA gene	Chr4:147068809-147075958 (+)
DBA/2J	ENSMUSG00185017293	lncRNA gene	Chr4:150626435-150633574 (+)
FVB/NJ	ENSMUSG00205022115	lncRNA gene	Chr4:145522591-145529739 (+)
JF1/MsJ	ENSUMUG00000000453	lncRNA gene	Chr4:153642334-153649502 (+)
LP/J	ENSMUSG00230025787	lncRNA gene	Chr4:157350792-157357942 (+)
NOD/ShiLtJ	ENSMUSG00190004231	lncRNA gene	Chr4:146726228-146733378 (+)
NZO/HlLtJ	no annotation
PWK/PhJ	ENSLUMG00010028907	lncRNA gene	Chr4:145903990-145911167 (+)
SPRET/EiJ	ENSMSPG00010026665	lncRNA gene	Chr4:147858770-147865865 (+)
WSB/EiJ	ENSIUOG00005006899	lncRNA gene	Chr4:144936096-144943240 (+)

Homology

• Human Ortholog
  PRDM16-DT, PRDM16 divergent transcript

• Vertebrate Orthologs
  1

Vertebrate Orthology Source

Alliance of Genome Resources

• Human Ortholog
  PRDM16-DT, PRDM16 divergent transcript
  
• Synonyms
  LINC00982, lnc-dPrdm16
• Links
  HGNC:48664

  NCBI Gene ID: 440556

  
  
• Chr Location
  1p36.32; chr1:3059611-3069091 (-)  GRCh38

---

• MGI Vertebrate Homology
  Prdm16os stringent orthology
  1 human;1 mouse
  
• HCOP
  vertebrate homology predictions: PRDM16-DT
• Gene Tree
  Prdm16os
  

Mutations,
Alleles, and
Phenotypes

• Phenotype Summary
  3 phenotype references
  

• All Mutations and Alleles
  3
• Targeted
  3
• Genomic Mutations
  3 involving Prdm16os
• Find Mice (IMSR)
  0 strains or lines available

Gene Ontology
(GO)
Classifications

Expression

• Assay Results
  597
• cDNA Data
  4

Tissue x Stage Matrix

• Other Mouse Links
  GEO
  Expression Atlas

Sequences &
Gene Models

• All Sequences
  23
• RefSeq
  1

• Ensembl
  ENSMUSG00000085069 (Evidence)
• NCBI Gene
  100042178

Representative Sequences			Length	Strain/Species
genomic	100042178	NCBI Gene Model | MGI Sequence Detail	7139	C57BL/6J
transcript	NR_168731	RefSeq | MGI Sequence Detail	3532	C57BL/6

Molecular
Reagents

• All nucleic 4

  cDNA 4

Other
Accession IDs

MGI:6277076

References

• Summaries
  All 13

  Phenotypes 3
• 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:269596 Ding C, et al., De novo reconstruction of human adipose transcriptome reveals conserved lncRNAs as regulators of brown adipogenesis. Nat Commun. 2018 Apr 6;9(1):1329

TSS for Prdm16os:

(View these features in JBrowse)

Transcription Start Site	Location	Distance from Gene 5'-end
Tssr40591	Chr4:154721598-154721605 (+)	-435 bp
Tssr40592	Chr4:154722003-154722021 (+)	-25 bp
Tssr40593	Chr4:154722026-154722044 (+)	-2 bp