1700001J11Rik Pseudogene Detail

Summary

• Symbol
  1700001J11Rik
• Name
  RIKEN cDNA 1700001J11 gene

• Feature Type
  pseudogene
  BioType Conflict
  
• IDs
  MGI:1919474
  NCBI Gene: 72224
• Alliance
  genome feature page
• Transcription Start Sites
  3 TSS

Location &
Maps

• Sequence Map
  Chr9:39961854-39964321 bp, + strand

  From NCBI annotation of GRCm39
  

• View this region in JBrowse
  

• Genome Browsers
  Ensembl | UCSC | NCBI

• Genetic Map
  Chromosome 9, Syntenic
• Mapping Data
  2 experiments

Strain
Comparison

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

Strain	Gene Model ID	Feature Type	Coordinates
C57BL/6J	MGI_C57BL6J_1919474	pseudogene	Chr9:39961661-39964465 (+)
129S1/SvImJ	ENSMUSG00200039624	protein coding gene	Chr9:37034006-37042392 (+)
A/J	ENSMUSG00195048730	protein coding gene	Chr9:36797504-36805891 (+)
AKR/J	ENSMUSG00220043617	protein coding gene	Chr9:36874094-36882485 (+)
BALB/cJ	ENSMUSG00180044470	protein coding gene	Chr9:36920799-36929186 (+)
C3H/HeJ	ENSMUSG00175042723	protein coding gene	Chr9:36921439-36929826 (+)
C57BL/6NJ	ENSMUSG00215014835	protein coding gene	Chr9:36869590-36877978 (+)
CAROLI/EiJ	no annotation
CAST/EiJ	ENSTCUG00005043879	protein coding gene	Chr9:36867044-36871803 (+)
CBA/J	ENSMUSG00210037814	protein coding gene	Chr9:36956509-36964901 (+)
DBA/2J	ENSMUSG00185037605	protein coding gene	Chr9:37011891-37020283 (+)
FVB/NJ	ENSMUSG00205039413	protein coding gene	Chr9:37258926-37267269 (+)
JF1/MsJ	ENSUMUG00000038961	protein coding gene	Chr9:37072516-37076876 (+)
LP/J	ENSMUSG00230029973	protein coding gene	Chr9:37329887-37338273 (+)
NOD/ShiLtJ	ENSMUSG00190026054	protein coding gene	Chr9:37086393-37094779 (+)
NZO/HlLtJ	ENSMUSG00225020092	protein coding gene	Chr9:37298298-37306684 (+)
PWK/PhJ	ENSLUMG00010042113	protein coding gene	Chr9:37037910-37042264 (+)
SPRET/EiJ	ENSMSPG00010022378	protein coding gene	Chr9:53929046-54025409 (+)
WSB/EiJ	ENSIUOG00005038723	protein coding gene	Chr9:36526353-36531113 (+)

Homology

• Gene Tree
  1700001J11Rik
  

Gene Ontology
(GO)
Classifications

• All GO Annotations
  6
• GO References
  3

Expression

• cDNA Data
  1

• Other Mouse Links
  GEO
  Expression Atlas

Sequences &
Gene Models

• All Sequences
  25
• RefSeq
  1
• UniProt
  1

• Ensembl
  ENSMUSG00000121668 (Evidence)
• NCBI Gene
  72224

Representative Sequences			Length	Strain/Species
genomic	72224	NCBI Gene Model | MGI Sequence Detail	2468	C57BL/6J
transcript	NR_033613	RefSeq | MGI Sequence Detail	2468	Not Specified
polypeptide	A0ABJ3HP09	UniProt | EBI | MGI Sequence Detail	771	Not Applicable

Protein
Information

• UniProt
  1 Sequence
• EC
  2.3.2.31
• InterPro Domains
  IPR031127 E3 ubiquitin ligase RBR family
  IPR002867 IBR domain
  IPR063063 RBR-type E3 ubiquitin ligase RNF19, helical hairpin domain
  IPR044066 TRIAD supradomain
  IPR018957 Zinc finger, C3HC4 RING-type
  IPR013083 Zinc finger, RING/FYVE/PHD-type
  IPR001841 Zinc finger, RING-type

Molecular
Reagents

• All nucleic 1

  cDNA 1

  
  

  Microarray probesets 1

Other
Accession IDs

MGI:7814861

References

• Summaries
  All 13

  Gene Ontology 3
• Earliest
  J:65060 Kawai J, et al., Functional annotation of a full-length mouse cDNA collection. Nature. 2001 Feb 8;409(6821):685-90
• Latest
  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

TSS for 1700001J11Rik:

(View these features in JBrowse)

Transcription Start Site	Location	Distance from Gene 5'-end
Tssr84426	Chr9:39961656-39961678 (+)	-187 bp
Tssr84427	Chr9:39961684-39961705 (+)	-159 bp
Tssr84428	Chr9:39961715-39961720 (+)	-136 bp