5330438D12Rik Gene Detail

Summary

• Symbol
  5330438D12Rik
• Name
  RIKEN cDNA 5330438D12 gene

• Feature Type
  lncRNA gene
  BioType Conflict
  
• IDs
  MGI:3026931
  NCBI Gene: 327824
• Alliance
  genome feature page
• Transcription Start Sites
  2 TSS

Location &
Maps

• Sequence Map
  Chr10:116416787-116419418 bp, + strand

  From NCBI annotation of GRCm39
  

• View this region in JBrowse
  

• Genome Browsers
  Ensembl | UCSC | NCBI

• Genetic Map
  Chromosome 10, 64.81 cM
• Mapping Data
  2 experiments

Strain
Comparison

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

Strain	Gene Model ID	Feature Type	Coordinates
C57BL/6J	MGI_C57BL6J_3026931	lncRNA gene	Chr10:116344919-116451878 (+)
129S1/SvImJ	ENSMUSG00200027304	lncRNA gene	Chr10:112754283-112861203 (+)
A/J	ENSMUSG00195023499	lncRNA gene	Chr10:113188979-113295904 (+)
AKR/J	ENSMUSG00220015241	lncRNA gene	Chr10:112762677-112869600 (+)
BALB/cJ	ENSMUSG00180017714	lncRNA gene	Chr10:113205944-113312862 (+)
C3H/HeJ	ENSMUSG00175026071	lncRNA gene	Chr10:113150885-113257805 (+)
C57BL/6NJ	ENSMUSG00215022496	lncRNA gene	Chr10:112847242-112954163 (+)
CAROLI/EiJ	MGP_CAROLIEiJ_G0033985	pseudogene	Chr10:109372411-109374546 (+)
CAST/EiJ	ENSTCUG00005032806	lncRNA gene	Chr10:112169524-112270427 (+)
CBA/J	ENSMUSG00210021706	lncRNA gene	Chr10:113000448-113107366 (+)
DBA/2J	ENSMUSG00185009783	lncRNA gene	Chr10:113125367-113232293 (+)
FVB/NJ	ENSMUSG00205026469	lncRNA gene	Chr10:112449919-112556836 (+)
JF1/MsJ	ENSUMUG00000021518	lncRNA gene	Chr10:114445300-114546513 (+)
LP/J	ENSMUSG00230026967	lncRNA gene	Chr10:115074344-115181305 (+)
NOD/ShiLtJ	ENSMUSG00190018830	lncRNA gene	Chr10:113250527-113357435 (+)
NZO/HlLtJ	ENSMUSG00225018740	lncRNA gene	Chr10:119329220-119436126 (+)
PWK/PhJ	ENSLUMG00010013333	lncRNA gene	Chr10:112833602-112934456 (+)
SPRET/EiJ	ENSMSPG00010017684	lncRNA gene	Chr10:114768247-114867589 (+)
WSB/EiJ	ENSIUOG00005014301	lncRNA gene	Chr10:112833967-112940682 (+)

Homology

• Gene Tree
  5330438D12Rik
  

Mutations,
Alleles, and
Phenotypes

• Phenotype Summary
  10 phenotype references
  

• All Mutations and Alleles
  9
• Chemically induced (other)
  1
• Gene trapped
  8
• Genomic Mutations
  1 involving 5330438D12Rik
• Find Mice (IMSR)
  3 strains or lines available

Expression

• Assay Results
  597
• cDNA Data
  3

Tissue x Stage Matrix

• Other Mouse Links
  GEO
  Expression Atlas

Sequences &
Gene Models

• All Sequences
  91
• RefSeq
  2
• UniProt
  1

• Ensembl
  ENSMUSG00000052291 (Evidence)
• NCBI Gene
  327824

Representative Sequences			Length	Strain/Species
genomic	327824	NCBI Gene Model | MGI Sequence Detail	2632	C57BL/6J
transcript	AK077360	GenBank | ENA | DDBJ | MGI Sequence Detail	2244	C57BL/6J
polypeptide	Q8BPA5	UniProt | EBI | MGI Sequence Detail	224	Not Applicable

Protein
Information

• UniProt
  1 Sequence

Molecular
Reagents

• All nucleic 3

  cDNA 3

  
  

  Microarray probesets 2

References

• Summaries
  All 24

  Phenotypes 10
• Earliest
  J:137335 Roderick TH, Chromosomal inversions in studies of mammalian mutagenesis. Genetics. 1979 May;92(1 Pt 1 Suppl):s121-6
• Latest
  J:142754 Hansen GM, et al., Large-scale gene trapping in C57BL/6N mouse embryonic stem cells. Genome Res. 2008 Oct;18(10):1670-9

TSS for 5330438D12Rik:

(View these features in JBrowse)

Transcription Start Site	Location	Distance from Gene 5'-end
Tssr95875	Chr10:116417450-116417490 (+)	683 bp
Tssr95876	Chr10:116417494-116417512 (+)	716 bp