Rncr4 Gene Detail

Summary

• Symbol
  Rncr4
• Name
  retina expressed non-coding RNA 4
• Synonyms
  Gm37046

• Feature Type
  lncRNA gene
• IDs
  MGI:5610274
• Alliance
  genome feature page
• Transcription Start Sites
  1 TSS

Location &
Maps

• Sequence Map
  Chr6:30172892-30175125 bp, + strand

  From Ensembl annotation of GRCm39
  

• View this region in JBrowse
  

• Genome Browsers
  Ensembl | UCSC | NCBI

• Genetic Map
  Chromosome 6, Syntenic
• Mapping Data
  1 experiment

Strain
Comparison

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

Strain	Gene Model ID	Feature Type	Coordinates
C57BL/6J	MGI_C57BL6J_5610274	lncRNA gene	Chr6:30172892-30175125 (+)
129S1/SvImJ	ENSMUSG00200036025	lncRNA gene	Chr6:27224637-27226871 (+)
A/J	ENSMUSG00195009263	lncRNA gene	Chr6:27187237-27189471 (+)
AKR/J	ENSMUSG00220003871	lncRNA gene	Chr6:26780307-26782541 (+)
BALB/cJ	ENSMUSG00180022352	lncRNA gene	Chr6:27318866-27321100 (+)
C3H/HeJ	ENSMUSG00175019539	lncRNA gene	Chr6:27182083-27184317 (+)
C57BL/6NJ	ENSMUSG00215028967	lncRNA gene	Chr6:27225126-27227359 (+)
CAROLI/EiJ	MGP_CAROLIEiJ_G0001631	unclassified gene	Chr6:25036272-25038494 (+)
CAST/EiJ	ENSTCUG00005027917	lncRNA gene	Chr6:26769261-26771495 (+)
CBA/J	ENSMUSG00210004482	lncRNA gene	Chr6:27203289-27205523 (+)
DBA/2J	ENSMUSG00185022138	lncRNA gene	Chr6:27297827-27300061 (+)
FVB/NJ	ENSMUSG00205032434	lncRNA gene	Chr6:27272285-27274519 (+)
JF1/MsJ	ENSUMUG00000041928	lncRNA gene	Chr6:26995631-26997862 (+)
LP/J	ENSMUSG00230030793	lncRNA gene	Chr6:28241213-28243447 (+)
NOD/ShiLtJ	ENSMUSG00190030828	lncRNA gene	Chr6:27066861-27069095 (+)
NZO/HlLtJ	ENSMUSG00225014735	lncRNA gene	Chr6:30202208-30204442 (+)
PWK/PhJ	ENSLUMG00010025961	lncRNA gene	Chr6:26772507-26774741 (+)
SPRET/EiJ	ENSMSPG00010021865	lncRNA gene	Chr6:27202338-27204570 (+)
WSB/EiJ	ENSIUOG00005033988	lncRNA gene	Chr6:27376324-27378557 (+)

Homology

• Gene Tree
  Rncr4
  

Mutations,
Alleles, and
Phenotypes

• Phenotype Summary
  2 phenotype references
  

• All Mutations and Alleles
  1
• Gene trapped
  1
• Find Mice (IMSR)
  0 strains or lines available

Gene Ontology
(GO)
Classifications

• All GO Annotations
  2
• GO References
  1

Expression

• Assay Results
  618
• Tissues
  21
• Literature Summary
  1

Images

Tissue x Stage Matrix

• Other Mouse Links
  Expression Atlas

Sequences &
Gene Models

• All Sequences
  21

• Ensembl
  ENSMUSG00000103108 (Evidence)

Representative Sequences			Length	Strain/Species
genomic	ENSMUSG00000103108	Ensembl Gene Model | MGI Sequence Detail	2234	C57BL/6J
transcript	ENSMUST00000194541	Ensembl | MGI Sequence Detail	2234	Not Applicable

Molecular
Reagents

• All nucleic 1

  Primer pair 1

References

• Summaries
  All 6

  Developmental Gene Expression 1

  Gene Ontology 1

  Phenotypes 2
• Earliest
  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
• Latest
  J:258363 Ushakov K, et al., Genome-wide identification and expression profiling of long non-coding RNAs in auditory and vestibular systems. Sci Rep. 2017 Aug 17;7(1):8637

TSS for Rncr4:

(View these features in JBrowse)

Transcription Start Site	Location	Distance from Gene 5'-end
Tssr55327	Chr6:30172859-30172869 (+)	-28 bp