3300002P09Rik Gene Detail

Summary

• Symbol
  3300002P09Rik
• Name
  RIKEN cDNA 3300002P09 gene

• Feature Type
  lncRNA gene
• IDs
  MGI:1917496
  NCBI Gene: 70246
• Alliance
  genome feature page
• Transcription Start Sites
  3 TSS

Location &
Maps

• Sequence Map
  Chr10:80235663-80237511 bp, + strand

  From Ensembl annotation of GRCm39
  

• View this region in JBrowse
  

• Genome Browsers
  Ensembl | UCSC | NCBI

• Genetic Map
  Chromosome 10, Syntenic
• Mapping Data
  1 experiment

Strain
Comparison

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

Strain	Gene Model ID	Feature Type	Coordinates
C57BL/6J	MGI_C57BL6J_1917496	lncRNA gene	Chr10:80235663-80237511 (+)
129S1/SvImJ	ENSMUSG00200050549	lncRNA gene	Chr10:76861724-76863569 (+)
A/J	ENSMUSG00195050601	lncRNA gene	Chr10:77257275-77259120 (+)
AKR/J	ENSMUSG00220050210	lncRNA gene	Chr10:76854841-76856686 (+)
BALB/cJ	ENSMUSG00180052965	lncRNA gene	Chr10:77267777-77269622 (+)
C3H/HeJ	ENSMUSG00175052896	lncRNA gene	Chr10:77138450-77140295 (+)
C57BL/6NJ	ENSMUSG00215053114	lncRNA gene	Chr10:76880168-76882013 (+)
CAROLI/EiJ	no annotation
CAST/EiJ	ENSTCUG00005051712	lncRNA gene	Chr10:76766468-76768319 (+)
CBA/J	ENSMUSG00210050039	lncRNA gene	Chr10:76994532-76996377 (+)
DBA/2J	ENSMUSG00185054082	lncRNA gene	Chr10:77336896-77338741 (+)
FVB/NJ	ENSMUSG00205051656	lncRNA gene	Chr10:77049697-77051542 (+)
JF1/MsJ	ENSUMUG00000055692	lncRNA gene	Chr10:78569094-78570943 (+)
LP/J	ENSMUSG00230051087	lncRNA gene	Chr10:79106628-79108473 (+)
NOD/ShiLtJ	ENSMUSG00190052343	lncRNA gene	Chr10:77250628-77252473 (+)
NZO/HlLtJ	ENSMUSG00225053297	lncRNA gene	Chr10:83392982-83394827 (+)
PWK/PhJ	ENSLUMG00010051725	lncRNA gene	Chr10:76930695-76932544 (+)
SPRET/EiJ	ENSMSPG00010048429	lncRNA gene	Chr10:78544785-78546621 (+)
WSB/EiJ	ENSIUOG00005051598	lncRNA gene	Chr10:76954929-76956774 (+)

Homology

• Gene Tree
  3300002P09Rik
  

Expression

• cDNA Data
  2

• Other Mouse Links
  GEO

Sequences &
Gene Models

• All Sequences
  24
• RefSeq
  1

• Ensembl
  ENSMUSG00000120873 (Evidence)
• NCBI Gene
  70246

Representative Sequences			Length	Strain/Species
genomic	ENSMUSG00000120873	Ensembl Gene Model | MGI Sequence Detail	1849	C57BL/6J
transcript	ENSMUST00000246220	Ensembl | MGI Sequence Detail	1849	Not Applicable

Molecular
Reagents

• All nucleic 2

  cDNA 2

  
  

  Microarray probesets 2

References

• Summaries
  All 8
• Earliest
  J:65060 Kawai J, et al., Functional annotation of a full-length mouse cDNA collection. Nature. 2001 Feb 8;409(6821):685-90
• Latest
  J:80000 The FANTOM Consortium and The RIKEN Genome Exploration Research Group Phase I & II Team, Analysis of the mouse transcriptome based on functional annotation of 60,770 full-length cDNAs. Nature. 2002;420:563-573

TSS for 3300002P09Rik:

(View these features in JBrowse)

Transcription Start Site	Location	Distance from Gene 5'-end
Tssr94569	Chr10:80234800-80234869 (+)	-828 bp
Tssr94570	Chr10:80234871-80234883 (+)	-786 bp
Tssr94571	Chr10:80235656-80235682 (+)	6 bp