E230001N04Rik Gene Detail

Summary

• Symbol
  E230001N04Rik
• Name
  RIKEN cDNA E230001N04 gene
• Synonyms
  Lnc956

• Feature Type
  lncRNA gene
• IDs
  MGI:2443549
  NCBI Gene: 320187
• Alliance
  genome feature page
• Transcription Start Sites
  3 TSS

Location &
Maps

• Sequence Map
  Chr17:28740816-28743516 bp, + strand

  From NCBI annotation of GRCm39
  

• View this region in JBrowse
  

• Genome Browsers
  Ensembl | UCSC | NCBI

• Genetic Map
  Chromosome 17, 14.73 cM
• Mapping Data
  1 experiment

Strain
Comparison

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

Strain	Gene Model ID	Feature Type	Coordinates
C57BL/6J	MGI_C57BL6J_2443549	lncRNA gene	Chr17:28740816-28744372 (+)
129S1/SvImJ	ENSMUSG00200054090	lncRNA gene	Chr17:24399991-24402673 (+)
A/J	ENSMUSG00195054519	lncRNA gene	Chr17:25216345-25219027 (+)
AKR/J	ENSMUSG00220053999	lncRNA gene	Chr17:24263989-24266671 (+)
BALB/cJ	ENSMUSG00180050358	lncRNA gene	Chr17:24702466-24705148 (+)
C3H/HeJ	ENSMUSG00175054128	lncRNA gene	Chr17:24252409-24255092 (+)
C57BL/6NJ	ENSMUSG00215054645	lncRNA gene	Chr17:24252459-24255140 (+)
CAROLI/EiJ	MGP_CAROLIEiJ_G0005190	lincRNA gene	Chr17:24375440-24377532 (+)
CAST/EiJ	ENSTCUG00005050761	lncRNA gene	Chr17:24995827-24998508 (+)
CBA/J	ENSMUSG00210051302	lncRNA gene	Chr17:24090844-24093526 (+)
DBA/2J	ENSMUSG00185055341	lncRNA gene	Chr17:26305866-26308548 (+)
FVB/NJ	ENSMUSG00205053205	lncRNA gene	Chr17:24567386-24570068 (+)
JF1/MsJ	ENSUMUG00000057776	lncRNA gene	Chr17:25770741-25773442 (+)
LP/J	ENSMUSG00230055191	lncRNA gene	Chr17:27825797-27828479 (+)
NOD/ShiLtJ	ENSMUSG00190054091	lncRNA gene	Chr17:24199768-24202449 (+)
NZO/HlLtJ	ENSMUSG00225054516	lncRNA gene	Chr17:29793737-29796419 (+)
PWK/PhJ	ENSLUMG00010053503	lncRNA gene	Chr17:23693430-23696121 (+)
SPRET/EiJ	ENSMSPG00010049897	lncRNA gene	Chr17:24982387-24985033 (+)
WSB/EiJ	ENSIUOG00005052187	lncRNA gene	Chr17:24960163-24962844 (+)

Homology

• Gene Tree
  E230001N04Rik
  

Mutations,
Alleles, and
Phenotypes

• Phenotype Summary
  8 phenotypes from 2 alleles in 2 genetic backgrounds
  1 phenotype from multigenic genotypes
  5 phenotype references
  

• All Mutations and Alleles
  10
• Gene trapped
  8
• Find Mice (IMSR)
  7 strains or lines available
• Comparison Matrix
  Gene Expression + Phenotype

Mice homozygous for a knock-out allele exhibit embryonic lethality and DNA replication-associated genomic instability characterized by an increased level of DNA double-strand breaks and the formation of cytosolic DNA fragments.

Expression

• Assay Results
  597
• cDNA Data
  8

Tissue x Stage Matrix

Comparison Matrix

Gene Expression + Phenotype

• Other Mouse Links
  Allen Institute
  GEO
  Expression Atlas

Sequences &
Gene Models

• All Sequences
  32
• RefSeq
  1
• UniProt
  2

• Ensembl
  ENSMUSG00000066170 (Evidence)
• NCBI Gene
  320187

Representative Sequences			Length	Strain/Species
genomic	320187	NCBI Gene Model | MGI Sequence Detail	2701	C57BL/6J
transcript	AK153588	GenBank | ENA | DDBJ | MGI Sequence Detail	2057	C57BL/6J
polypeptide	Q3U5G7	UniProt | EBI | MGI Sequence Detail	143	Not Applicable

Protein
Information

• UniProt
  2 Sequences

Molecular
Reagents

• All nucleic 8

  cDNA 8

  
  

  Microarray probesets 1

References

• Summaries
  All 17

  Phenotypes 5
• Earliest
  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
• Latest
  J:333158 Ma H, et al., Lnc956 regulates mouse embryonic stem cell differentiation in response to DNA damage in a p53-independent pathway. Sci Adv. 2023 Jan 20;9(3):eade9742

TSS for E230001N04Rik:

(View these features in JBrowse)

Transcription Start Site	Location	Distance from Gene 5'-end
Tssr143434	Chr17:28741696-28741735 (+)	900 bp
Tssr143435	Chr17:28742249-28742288 (+)	1,453 bp
Tssr143436	Chr17:28742292-28742301 (+)	1,481 bp