Rn18s-rs5 Pseudogene Detail

Summary

• Symbol
  Rn18s-rs5
• Name
  18s RNA, related sequence 5
• Synonyms
  Gm42418, Rnr17

• Feature Type
  pseudogene
  BioType Conflict
  
• IDs
  MGI:107222
  NCBI Gene: 110183
• Alliance
  genome feature page
• Transcription Start Sites
  24 TSS

Location &
Maps

• Sequence Map
  Chr17:40157245-40159093 bp, + strand

  From NCBI annotation of GRCm39
  

• View this region in JBrowse
  

• Genome Browsers
  Ensembl | UCSC | NCBI

• Genetic Map
  Chromosome 17, Syntenic
• Mapping Data
  1 experiment

Strain
Comparison

• SNPs within 2kb
  77 from dbSNP Build 142
• Strain Annotations
  18
• RFLP
  1

Strain	Gene Model ID	Feature Type	Coordinates
C57BL/6J	MGI_C57BL6J_107222	pseudogene	Chr17:40157244-40159093 (+)
129S1/SvImJ	ENSMUSG00200052570	rRNA gene	Chr17:35575501-35577150 (+)
A/J	ENSMUSG00195048222	rRNA gene	Chr17:36822175-36824025 (+)
AKR/J	ENSMUSG00220052962	rRNA gene	Chr17:35724304-35725580 (+)
BALB/cJ	ENSMUSG00180045659	rRNA gene	Chr17:36613198-36615070 (+)
C3H/HeJ	ENSMUSG00175046021	rRNA gene	Chr17:35803370-35804806 (+)
C57BL/6NJ	ENSMUSG00215053841	rRNA gene	Chr17:35442197-35444067 (+)
CAROLI/EiJ	no annotation
CAST/EiJ	ENSTCUG00005052306	rRNA gene	Chr17:36629702-36631138 (+)
CBA/J	ENSMUSG00210052343	rRNA gene	Chr17:35541316-35542752 (+)
DBA/2J	ENSMUSG00185054889	rRNA gene	Chr17:38594047-38595922 (+)
FVB/NJ	no annotation
JF1/MsJ	ENSUMUG00000057812	rRNA gene	Chr17:37696753-37698563 (+)
LP/J	ENSMUSG00230054903	rRNA gene	Chr17:39692830-39694823 (+)
NOD/ShiLtJ	ENSMUSG00190053820	rRNA gene	Chr17:35490017-35491887 (+)
NZO/HlLtJ	ENSMUSG00225044212	rRNA gene	Chr17:41682376-41684251 (+)
NZO/HlLtJ	ENSMUSG00225035109	rRNA gene	Chr13:1817857-1819727 (+)
PWK/PhJ	ENSLUMG00010046616	rRNA gene	Chr17:35462324-35463725 (+)
SPRET/EiJ	ENSMSPG00010050961	rRNA gene	Chr17:36070206-36071886 (+)
WSB/EiJ	ENSIUOG00005052174	rRNA gene	Chr17:36640283-36642153 (+)

Homology

• Gene Tree
  Rn18s-rs5
  

Expression

• cDNA Data
  1

• Other Mouse Links
  GEO

Sequences &
Gene Models

• All Sequences
  23
• RefSeq
  1

• Ensembl
  ENSMUSG00000119584 (Evidence)
• NCBI Gene
  110183

Representative Sequences			Length	Strain/Species
genomic	110183	NCBI Gene Model | MGI Sequence Detail	1849	C57BL/6J
transcript	AK145507	GenBank | ENA | DDBJ | MGI Sequence Detail	1822	C57BL/6J

Molecular
Reagents

• All nucleic 2

  cDNA 2

Other
Accession IDs

MGD-MRK-28167, MGD-MRK-35687, MGI:5649005

References

• Summaries
  All 10
• Earliest
  J:695 Oberbaumer I, Retroposons do jump: a B2 element recently integrated in an 18S rDNA gene. Nucleic Acids Res. 1992 Feb 25;20(4):671-7
• Latest
  J:37421 Rowe LB, et al., Genetic mapping of 18S ribosomal RNA-related loci to mouse chromosomes 5, 6, 9, 12, 17, 18, 19, and X. Mamm Genome. 1996 Dec;7(12):886-9

TSS for Rn18s-rs5:

(View these features in JBrowse)

Transcription Start Site	Location	Distance from Gene 5'-end
Tssr144602	Chr17:40157238-40157252 (+)	0 bp
Tssr144603	Chr17:40157343-40157395 (+)	124 bp
Tssr144604	Chr17:40157401-40157416 (+)	164 bp
Tssr144605	Chr17:40157451-40157464 (+)	213 bp
Tssr144606	Chr17:40157509-40157548 (+)	284 bp
Tssr144607	Chr17:40157618-40157649 (+)	389 bp
Tssr144608	Chr17:40157765-40157785 (+)	530 bp
Tssr144609	Chr17:40157909-40157950 (+)	685 bp
Tssr144610	Chr17:40158068-40158106 (+)	842 bp
Tssr144611	Chr17:40158205-40158229 (+)	972 bp
Tssr144612	Chr17:40158334-40158339 (+)	1,092 bp
Tssr144613	Chr17:40158453-40158483 (+)	1,223 bp
Tssr144614	Chr17:40158485-40158505 (+)	1,250 bp
Tssr144615	Chr17:40158572-40158586 (+)	1,334 bp
Tssr144616	Chr17:40158607-40158676 (+)	1,397 bp
Tssr144617	Chr17:40158680-40158703 (+)	1,447 bp
Tssr144618	Chr17:40158710-40158720 (+)	1,470 bp
Tssr144619	Chr17:40158732-40158763 (+)	1,503 bp
Tssr144620	Chr17:40158781-40158786 (+)	1,539 bp
Tssr144621	Chr17:40158886-40158900 (+)	1,648 bp
Tssr144622	Chr17:40158905-40158916 (+)	1,666 bp
Tssr144623	Chr17:40158944-40158946 (+)	1,700 bp
Tssr144624	Chr17:40159041-40159081 (+)	1,816 bp
Tssr144625	Chr17:40159083-40159098 (+)	1,846 bp