Species | Human_TCR |
Species subgroup | |
Subgroup type | none |
Sequence Name | TRBV5-6*i01 |
IUIS Name | |
Alternative names | |
Affirmation Level | 1 |
Full Sequence | |
Coding Sequence | |
Functionality | F |
Inference Type | Rearranged |
Alternative names | |
Paralogs |
The table below lists the submissions, and the inferences within them, on which this published sequence is based. The list may be short when the sequence is first published, containing, for example, reference to just a single submission, but is expected to grow over time as additional inferences are submitted.
'Sequence Match' indicates whether the inference exactly matches the sequence, and clicking on the tick or cross will provide an alignment. Mismatches may be caused, for example, by the inclusion of leader sequences, or nucleotides in the inference which do not in IARC's opinion have sufficient evidence for inclusion in the sequence.
Submission ID | Accession No | Subject ID | Genotype Name | Sequence Name | Sequence Match |
---|---|---|---|---|---|
S00036 | OW166724 | CI13 | P4_I12_S1_ogrdb_report | TRBV5-6*01_T284G |
Sequences in other published genotypes which have been identified by IARC and support the inference:
Inferred sequences in VDJbase that match this sequence:
VDJbase Allele Name | Subjects | Sequence Match |
---|---|---|
TRBV5-6*01_t284g | 5 |
Un-rearranged sequence observations that support this sequence:
UTR 5' Start | |
UTR 5' End | |
L-PART1 Start | |
L-PART1 End | |
L-PART2 Start | |
L-PART2 End | |
v_rs_start | |
v_rs_end |
3' Extension | |
3' start | |
3' end | |
5' start | |
5' end |
Sequence ID | A02568 |
Curator address | Dept. of Immunotechnology, Lund University, Medicon Village building 406, S-22381 Lund, Sweden |
Version | 1 |
Release Date | 2023-03-20 |
Release Notes | Published by IARC on March 20, 2023. |
Locus | TRB |
Sequence Type | V |
Gene Subgroup | 5 |
Gene Designation | 6 |
Allele Designation | i01 |
Notes are added by IARC reviewers.
The inference of TRBV5-6*01_T284G was considered at IARC meeting 115 on February 9th, 2023 TRBV5−6*01_T284G (substitution: L95W) has been inferred in four genotypes in the VDJbase P4 data set, including in VDJbase P4_I12_S1, a haplotypable data set (based on heterozygocity in TRBJ1-6). The genotype is also implied to carry TRBV5-6*01. No other gene in the IMGT database is highly similar to these alleles of TRBV5-6. The novel allele is the lesser expressed allele in the repertoire (35% allelic frequency; 0.43% of the total error-free population). It is represented by 122 error-free sequences and 118 unique CDR3s in the error-free set. Haplotyping based on allelic diversity in TRBJ1-6 demonstrates perfect separation from TRBV5-6*01. IARC affirms the sequence as TRBV5-6*i01 at Level 1 up to and including base 324. It is acknowledged that the allele most likely carries 1 additional base, typically G, at base position 325. Trailing “.” indicates IARC’s opinion that the sequence is likely to contain additional 3’-nucleotides for which there is insufficient evidence to make an affirmation. For use in a reference germline gene set, IARC recommends the use of the expected full length sequence. >TRBV5-6*i01 TR loci might be highly complex. Genes may be duplicated or deleted, and identical sequences may be found in more than one gene. The name (with an “i” allele designation) of an inferred allele does not imply that its precise genetic location is known. It just relates to the most similar allele presently found in the IMGT database, or to the gene with the lowest alphanumeric value, should alleles of multiple genes be equally matched to the novel allele in question. No other highly similar genes have been described. |
History logs the times and reasons for the publication of each version of this sequence.
Mats Ohlin 2023-03-20 09:06:12 | Version 1 published Published by IARC on March 20, 2023. |
All published versions of this sequence.
Sequence Name | IMGT Name | Alternative names | Inference Type | Affirmation Level | Species subgroup | Subgroup type | Version | Date |
---|---|---|---|---|---|---|---|---|
TRBV5-6*i01 | Rearranged | 1 | none | 1 | 2023-03-20 |