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
  gene 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
  18

Strain	Gene Model ID	Feature Type	Coordinates
C57BL/6J	MGI_C57BL6J_4439841	pseudogenic gene segment	Chr14:54456271-54456299 (+)
129S1/SvImJ	MGP_129S1SvImJ_G0002507	pseudogenic gene segment	Chr14:48147139-48147167 (+)
A/J	MGP_AJ_G0002481	pseudogenic gene segment	Chr14:47239094-47239122 (+)
AKR/J	MGP_AKRJ_G0002467	pseudogenic gene segment	Chr14:48948078-48948106 (+)
BALB/cJ	MGP_BALBcJ_G0002475	pseudogenic gene segment	Chr14:47207867-47207895 (+)
C3H/HeJ	MGP_C3HHeJ_G0002454	pseudogenic gene segment	Chr14:48629136-48629164 (+)
C57BL/6NJ	MGP_C57BL6NJ_G0002602	pseudogenic gene segment	Chr14:50615095-50615123 (+)
CAROLI/EiJ	MGP_CAROLIEiJ_G0002200	pseudogenic gene segment	Chr14:45651733-45651761 (+)
CAST/EiJ	MGP_CASTEiJ_G0002416	pseudogenic gene segment	Chr14:44861049-44861077 (+)
CBA/J	MGP_CBAJ_G0002445	pseudogenic gene segment	Chr14:52106772-52106800 (+)
DBA/2J	MGP_DBA2J_G0002450	pseudogenic gene segment	Chr14:46983324-46983352 (+)
FVB/NJ	MGP_FVBNJ_G0002464	pseudogenic gene segment	Chr14:46437560-46437588 (+)
LP/J	MGP_LPJ_G0002506	pseudogenic gene segment	Chr14:49178357-49178385 (+)
NOD/ShiLtJ	MGP_NODShiLtJ_G0002434	pseudogenic gene segment	Chr14:51548248-51548276 (+)
NZO/HlLtJ	MGP_NZOHlLtJ_G0002597	pseudogenic gene segment	Chr14:48129843-48129871 (+)
PWK/PhJ	MGP_PWKPhJ_G0002377	pseudogenic gene segment	Chr14:43507016-43507044 (+)
SPRET/EiJ	MGP_SPRETEiJ_G0002329	pseudogenic gene segment	Chr14:44108202-44108230 (+)
WSB/EiJ	MGP_WSBEiJ_G0002443	pseudogenic gene segment	Chr14:48421603-48421631 (+)

Homology

• Gene Tree
  Traj1
  

Mutations,
Alleles, and
Phenotypes

• Phenotype Summary
  3 phenotype references
  

• All Mutations and Alleles
  2
• Chemically induced (other)
  1
• Targeted
  1
• Genomic Mutations
  2 involving Traj1
• Find Mice (IMSR)
  0 strains or lines available

Expression

• Assay Results
  706

Tissue x Stage Matrix

• Other Mouse Links
  Expression Atlas

Sequences &
Gene Models

• All Sequences
  22
• 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 7

  Phenotypes 3
• Earliest
  J:101719 Khor B, et al., Chromosomal excision of TCRdelta chain genes is dispensable for alphabeta T cell lineage commitment. Int Immunol. 2005 Mar;17(3):225-32
• 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