E230015B07Rik Gene Detail

Summary

• Symbol
  E230015B07Rik
• Name
  RIKEN cDNA E230015B07 gene

• Feature Type
  lncRNA gene
  BioType Conflict
  
• IDs
  MGI:2443140
  NCBI Gene: 320001
• Alliance
  gene page
• Candidate for QTL
  1 QTL

Location &
Maps

• Sequence Map
  Chr6:87648965-87653318 bp, + strand

  From Ensembl annotation of GRCm39
  

• View this region in JBrowse
  

• Genome Browsers
  Ensembl | UCSC | NCBI

• Genetic Map
  Chromosome 6, 38.74 cM
• Mapping Data
  2 experiments

Strain
Comparison

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

Strain	Gene Model ID	Feature Type	Coordinates
C57BL/6J	MGI_C57BL6J_2443140	lncRNA gene	Chr6:87648965-87658180 (+)
129S1/SvImJ	MGP_129S1SvImJ_G0004759	bidirectional promoter lncRNA gene	Chr6:89032377-89041019 (+)
A/J	MGP_AJ_G0004740	bidirectional promoter lncRNA gene	Chr6:85592867-85601509 (+)
AKR/J	MGP_AKRJ_G0004720	bidirectional promoter lncRNA gene	Chr6:88071965-88080607 (+)
BALB/cJ	MGP_BALBcJ_G0004722	bidirectional promoter lncRNA gene	Chr6:85590909-85599551 (+)
C3H/HeJ	MGP_C3HHeJ_G0004672	bidirectional promoter lncRNA gene	Chr6:96391644-96400286 (-)
C57BL/6NJ	MGP_C57BL6NJ_G0004872	bidirectional promoter lncRNA gene	Chr6:91414654-91423296 (+)
CAROLI/EiJ	MGP_CAROLIEiJ_G0004310	bidirectional promoter lncRNA gene	Chr6:83771370-83777814 (+)
CAST/EiJ	MGP_CASTEiJ_G0004624	bidirectional promoter lncRNA gene	Chr6:88150220-88158198 (+)
CBA/J	MGP_CBAJ_G0004663	bidirectional promoter lncRNA gene	Chr6:94954516-94963158 (+)
DBA/2J	MGP_DBA2J_G0004681	bidirectional promoter lncRNA gene	Chr6:84895680-84904322 (+)
FVB/NJ	MGP_FVBNJ_G0004700	bidirectional promoter lncRNA gene	Chr6:84081563-84090205 (+)
LP/J	MGP_LPJ_G0004760	bidirectional promoter lncRNA gene	Chr6:89051596-89060238 (+)
NOD/ShiLtJ	MGP_NODShiLtJ_G0004685	bidirectional promoter lncRNA gene	Chr6:99097406-99106048 (+)
NZO/HlLtJ	MGP_NZOHlLtJ_G0004875	bidirectional promoter lncRNA gene	Chr6:87917753-87926394 (+)
PWK/PhJ	MGP_PWKPhJ_G0004577	bidirectional promoter lncRNA gene	Chr6:83860005-83868865 (+)
SPRET/EiJ	MGP_SPRETEiJ_G0004510	bidirectional promoter lncRNA gene	Chr6:86736962-86746858 (+)
WSB/EiJ	MGP_WSBEiJ_G0004669	bidirectional promoter lncRNA gene	Chr6:88375879-88384521 (+)

Homology

• Gene Tree
  E230015B07Rik
  

Mutations,
Alleles, and
Phenotypes

• Phenotype Summary
  4 phenotype references
  

• All Mutations and Alleles
  1
• Spontaneous
  1
• Genomic Mutations
  1 involving E230015B07Rik
• Find Mice (IMSR)
  0 strains or lines available

Gene Ontology
(GO)
Classifications

Expression

• Assay Results
  706
• cDNA Data
  5

Tissue x Stage Matrix

• Other Mouse Links
  Allen Institute
  GEO
  Expression Atlas

Sequences &
Gene Models

• All Sequences
  25
• RefSeq
  1
• UniProt
  1

• Ensembl
  ENSMUSG00000071332 (Evidence)
• NCBI Gene
  320001

Representative Sequences			Length	Strain/Species
genomic	ENSMUSG00000071332	Ensembl Gene Model | MGI Sequence Detail	4354	C57BL/6J
transcript	ENSMUST00000238275	Ensembl | MGI Sequence Detail	381	Not Applicable
polypeptide	Q8C6Q8	UniProt | EBI | MGI Sequence Detail	129	Not Applicable

Protein
Information

• UniProt
  1 Sequence

Molecular
Reagents

• All nucleic 5

  cDNA 5

  
  

  Microarray probesets 1

References

• Summaries
  All 16

  Phenotypes 4
• 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:330636 Iwata S, et al., An efficient i-GONAD method for creating and maintaining lethal mutant mice using an inversion balancer identified from the C3H/HeJJcl strain. G3 (Bethesda). 2021;11(8)

E230015B07Rik is Candidate Gene for:

QTL	Genetic Location*	Genome Location (GRCm39)	Reference	QTL Note
Arrd1	Chr6, syntenic	Chr6:75521339-92584431	J:118199	Linkage analysis was performed on 170 animals from a (A/J x C57BL/6J)F2 intercross to determine if age-related retinal degeneration QTLs previously identified in a (C57BL/6J-Tyr x BALB/cByJ)F2 intercross are present. Parental strain A/J exhibits greater age-related retinal degeneration compared to C57BL/6J. F2 animals were maintained in a dimly-lit environment and sacrificed at 8 months of age. The retinal outer nuclear layer was recorded for each animal. Eighty-six polymorphic markers at an average spacing of 13.1 cM were used for the genome scan. Previously identified QTLs Arrd1 (chr6), Arrd2 (chr10), and Arrd3 (chr16) were not detected in this cross. However, SNP analysis was used to identify positional candidate genes for Arrd1 at 35 cM. Prokr1, Gkn1, Gata2 (38.5 cM) , 2010301N04Rik, and E230015B07Rik map to the Arrd1 interval and are expressed in the eye. Antxr, Ruvbl1, and Eefsec map to the Arrd1 locus but do not exhibit co-expression with retina- or RPE-specific genes. Significant linkage to age-related retinal degeneration was detected on the X chromosome between DXMit192 (16 cM) and DXMit19 (43.2 cM). This locus is named Arrd4 (age-related retinal degeneration 4). Males hemizygous for C57BL/6J-derived alleles at Arrd4 exhibit decreased retinal degeneration compared to females with A/J-derived alleles. Thus, Arrd4 appears to have a sex-dependent effect. Suggestive linkage to age-related retinal degeneration mapped to proximal mouse Chromosome 14 between D14Mit98 (3 cM) and D14Mit60 (15 cM) with LOD=2.15. This region overlaps with a suggestive locus detected in the (C57BL/6J-Tyr x BALB/cByJ)F2 cross. C57BL/6J-derived alleles confer susceptibility retinal degeneration in both crosses. Suggestive linkage was detected at 13 cM- 29 cM on mouse Chromosome 12 between D12Mit59 and D12Mit91 (LOD=2.24). This locus was also suggestive in the (C57BL/6J-Tyr x BALB/cByJ)F2 cross between D12Mit60 (16 cM) and D12Mit236 (22 cM). C57BL/6J-derived alleles confer susceptibility to retinal degeneration in both crosses. A distal locus also shows suggestive linkage to retinal degeneration in (A/J x C57BL/6J)F2 animals at 53 cM - 59 cM (LOD=2.91). C57BL/6J-derived alleles at this locus confers susceptibility to retinal degeneration. Suggestive linkage unique to the (A/J x C57BL/6J)F2 cross mapped to 35 cM (D13Mit13) - 40 cM (D13Mit256) on mouse Chromosome 13 (LOD=2.85) and 22.9 cM (D17Mit51) - 34.3 cM (D17Mit20) on mouse Chromosome 17 (LOD=2.22). C57BL/6J-derived alleles at these loci confer resistance to age-related retinal degeneration.

*cM position of peak correlated region/marker