Traj1 Pseudogene Detail

Summary

• Symbol
  Traj1
• Name
  T cell receptor alpha joining 1
• Synonyms
  Gm16917

• Feature Type
  pseudogenic gene segment
• IDs
  MGI:4439841
  NCBI Gene: 100124400
• Alliance
  genome feature page
• Transcription Start Sites
  1 TSS

Location &
Maps

• Sequence Map
  Chr14:54456271-54456299 bp, + strand

  From NCBI annotation of GRCm39
  

• View this region in JBrowse
  

• Genome Browsers
  Ensembl | UCSC | NCBI

• Genetic Map
  Chromosome 14, 27.70 cM
• Mapping Data
  1 experiment

Strain
Comparison

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

Strain	Gene Model ID	Feature Type	Coordinates
C57BL/6J	MGI_C57BL6J_4439841	pseudogenic gene segment	Chr14:54456271-54456299 (+)
129S1/SvImJ	ENSMUSG00200044822	pseudogenic gene segment	Chr14:43048580-43048608 (+)
A/J	ENSMUSG00195036210	pseudogenic gene segment	Chr14:43272860-43272888 (+)
AKR/J	ENSMUSG00220032076	pseudogenic gene segment	Chr14:42600800-42600828 (+)
BALB/cJ	ENSMUSG00180052218	pseudogenic gene segment	Chr14:42896622-42896650 (+)
C3H/HeJ	ENSMUSG00175051840	pseudogenic gene segment	Chr14:44579060-44579088 (+)
C57BL/6NJ	ENSMUSG00215048954	pseudogenic gene segment	Chr14:42778575-42778603 (+)
CAROLI/EiJ	MGP_CAROLIEiJ_G0002200	pseudogenic gene segment	Chr14:45651733-45651761 (+)
CAST/EiJ	ENSTCUG00005050824	pseudogenic gene segment	Chr14:44575220-44575248 (+)
CBA/J	ENSMUSG00210048251	pseudogenic gene segment	Chr14:43259626-43259654 (+)
DBA/2J	ENSMUSG00185054851	pseudogenic gene segment	Chr14:48300315-48300343 (+)
FVB/NJ	ENSMUSG00205046835	pseudogenic gene segment	Chr14:42642563-42642591 (+)
JF1/MsJ	ENSUMUG00000053564	pseudogenic gene segment	Chr14:59558773-59558801 (+)
LP/J	ENSMUSG00230053170	pseudogenic gene segment	Chr14:60414571-60414599 (+)
NOD/ShiLtJ	ENSMUSG00190050484	pseudogenic gene segment	Chr14:43003378-43003406 (+)
NZO/HlLtJ	ENSMUSG00225051437	pseudogenic gene segment	Chr14:50712664-50712692 (+)
PWK/PhJ	ENSLUMG00010051609	pseudogenic gene segment	Chr14:42482685-42482713 (+)
SPRET/EiJ	ENSMSPG00010049240	pseudogenic gene segment	Chr14:45873211-45873239 (+)
WSB/EiJ	ENSIUOG00005044778	pseudogenic gene segment	Chr14:42474378-42474406 (+)

Homology

• Gene Tree
  Traj1
  

Mutations,
Alleles, and
Phenotypes

• Phenotype Summary
  4 phenotype references
  

• All Mutations and Alleles
  4
• Chemically induced (other)
  1
• Targeted
  3
• Genomic Mutations
  4 involving Traj1
• Find Mice (IMSR)
  0 strains or lines available

Expression

• Assay Results
  597

Tissue x Stage Matrix

• Other Mouse Links
  Expression Atlas

Sequences &
Gene Models

• All Sequences
  23
• RefSeq
  1

• Ensembl
  ENSMUSG00000076927 (Evidence)
• NCBI Gene
  100124400

Representative Sequences			Length	Strain/Species
genomic	100124400	NCBI Gene Model | MGI Sequence Detail	29	C57BL/6J

References

• Summaries
  All 19

  Phenotypes 4
• Earliest
  J:7626 Chien Y, et al., A third type of murine T-cell receptor gene. Nature. 1984 Nov 1-7;312(5989):31-5
• Latest
  J:164272 Giudicelli V, et al., IMGT/GENE-DB: a comprehensive database for human and mouse immunoglobulin and T cell receptor genes. Nucleic Acids Res. 2005 Jan 1;33(Database issue):D256-61

TSS for Traj1:

(View these features in JBrowse)

Transcription Start Site	Location	Distance from Gene 5'-end
Tssr125596	Chr14:54456286-54456291 (+)	18 bp