Trav23 Pseudogene Detail

Summary

• Symbol
  Trav23
• Name
  T cell receptor alpha variable 23

• Feature Type
  pseudogenic gene segment
  BioType Conflict
  
• IDs
  MGI:5009959
  NCBI Gene: 100113481
• Alliance
  gene page

Location &
Maps

• Sequence Map
  Chr14:54214610-54215135 bp, + strand

  From NCBI annotation of GRCm39
  

• View this region in JBrowse
  

• Genome Browsers
  Ensembl | UCSC | NCBI

• Genetic Map
  Chromosome 14, 27.59 cM
• Mapping Data
  1 experiment

Strain
Comparison

• SNPs within 2kb
  53 from dbSNP Build 142
• Strain Annotations
  15

Strain	Gene Model ID	Feature Type	Coordinates
C57BL/6J	MGI_C57BL6J_5009959	pseudogenic gene segment	Chr14:54214610-54215135 (+)
129S1/SvImJ	MGP_129S1SvImJ_G0002573	gene segment	Chr14:47899526-47900050 (+)
A/J	MGP_AJ_G0002544	gene segment	Chr14:46994200-46994724 (+)
AKR/J	MGP_AKRJ_G0002535	gene segment	Chr14:48689289-48689813 (+)
BALB/cJ	MGP_BALBcJ_G0002530	gene segment	Chr14:46957711-46958235 (+)
C3H/HeJ	MGP_C3HHeJ_G0002497	gene segment	Chr14:48369225-48369749 (+)
C57BL/6NJ	MGP_C57BL6NJ_G0002671	gene segment	Chr14:50353049-50353574 (+)
CAROLI/EiJ	no annotation
CAST/EiJ	no annotation
CBA/J	MGP_CBAJ_G0002496	gene segment	Chr14:51831949-51832473 (+)
DBA/2J	MGP_DBA2J_G0002500	gene segment	Chr14:46720751-46721275 (+)
FVB/NJ	MGP_FVBNJ_G0002528	gene segment	Chr14:46194661-46195185 (+)
LP/J	MGP_LPJ_G0002579	gene segment	Chr14:48920836-48921360 (+)
NOD/ShiLtJ	MGP_NODShiLtJ_G0002503	gene segment	Chr14:51299649-51300173 (+)
NZO/HlLtJ	MGP_NZOHlLtJ_G0002681	gene segment	Chr14:47874962-47875486 (+)
PWK/PhJ	MGP_PWKPhJ_G0002442	gene segment	Chr14:43262505-43263029 (+)
SPRET/EiJ	no annotation
WSB/EiJ	MGP_WSBEiJ_G0002498	gene segment	Chr14:48173266-48173790 (+)

Homology

• Human Ortholog
  TRAV39, T cell receptor alpha variable 39

• Vertebrate Orthologs
  1

Vertebrate Orthology Source

Alliance of Genome Resources

• Human Ortholog
  TRAV39, T cell receptor alpha variable 39
  
• Synonyms
  TCRAV27S1, TCRAV39S1
• Links
  HGNC:12139

  NCBI Gene ID: 28642

  UniProt: A0A0B4J263

  
  
• Chr Location
  14q11.2; chr14:22304054-22304553 (+)  GRCh38

---

• MGI Vertebrate Homology
  Trav23 stringent orthology
  1 human;1 mouse
  
• HCOP
  vertebrate homology predictions: TRAV39
• Gene Tree
  Trav23
  

Mutations,
Alleles, and
Phenotypes

• Phenotype Summary
  2 phenotype references
  

• All Mutations and Alleles
  1
• Chemically induced (other)
  1
• Genomic Mutations
  1 involving Trav23
• Find Mice (IMSR)
  3 strains or lines available

Gene Ontology
(GO)
Classifications

• All GO Annotations
  1
• GO References
  1

Expression

• Assay Results
  706

Tissue x Stage Matrix

• Other Mouse Links
  Expression Atlas

Sequences &
Gene Models

• All Sequences
  21
• RefSeq
  1
• UniProt
  1

• Ensembl
  ENSMUSG00000106289 (Evidence)
• NCBI Gene
  100113481

Representative Sequences			Length	Strain/Species
genomic	100113481	NCBI Gene Model | MGI Sequence Detail	526	C57BL/6J
polypeptide	A0A0G2JG17	UniProt | EBI | MGI Sequence Detail	115	Not Applicable

Protein
Information

• UniProt
  1 Sequence
• InterPro Domains
  IPR036179 Immunoglobulin-like domain superfamily
  IPR013783 Immunoglobulin-like fold
  IPR051006 T cell receptor variable domain

References

• Summaries
  All 7

  Gene Ontology 1

  Phenotypes 2
• Earliest
  J:23389 Roderick TH, Using inversions to detect and study recessive lethals and detrimentals in mice, in Utilization of Mammalian Specific Locus Studies in Hazard Evaluation and Estimation of Genetic Risk. 1983:135-67.
• Latest
  J:161428 Marc Feuermann, Huaiyu Mi, Pascale Gaudet, Dustin Ebert, Anushya Muruganujan, Paul Thomas, Annotation inferences using phylogenetic trees. 2010;