Species | Homo sapiens |
Species subgroup | |
Subgroup type | |
Sequence Name | IGHV3-21*05 |
IUIS Name | IGHV3-21*05 |
Alternative names | IGHV3-21*i01 |
Affirmation Level | 1 |
Full Sequence | |
Coding Sequence | |
Functionality | ORF |
Inference Type | Rearranged Only |
Mapped | True |
Paralogs | |
Paralog Rep | False |
Un-rearranged sequence observations that support this sequence:
Accession | Type | Repository | Start | End |
---|---|---|---|---|
MK308859 | Inferred | GenBank | 1 | 295 |
Click here to review supporting data in VDJbase.
Clicking the link will take you to VDJbase. Open in a new tab if you want to keep this page open. In VDJbase, click on the count in the Apperances column to see a list of samples in which the sequence was found.
CDR1 Start | 76 |
CDR1 End | 99 |
CDR2 Start | 151 |
CDR2 End | 174 |
CDR3 Start | 289 |
3' Extension | A |
3' start | |
3' end |
Sequence ID | A00037 |
Curator | William Lees |
Curator address | Birkbeck College, University of London, Malet Street, London |
Version | 3 |
Release Date | 2023-07-10 |
Release Notes | Bulk upload of sequences for the AIRR-C Human IG germline sets |
Locus | IGH |
Sequence Type | V |
Gene Subgroup | 3 |
Gene Designation | 21 |
Allele Designation | 05 |
Notes are added by IARC reviewers.
The 40th meeting of the IARC on August 7th 2019 considered the sequence IGHV3-21*01_S5868. The sequence represents IGHV3-21*01 C159T C164A in the IMGT numbering system. The committee noted a rearrangement frequency of 1.5%, with 9064 alignments including 5167 perfect matches to the inferred allele. Alignments were also seen to four other IGHV3-21 sequences, though only one of these sequences was abundant (IGHV3-21*01: 12914 alignments, 8386 unmutated alignments). Haplotyping based on IGHJ6 alleles confirmed the segregation of reads associated with these two alleles to the different haplotypes Alignments to the three other alleles shown in the genotype were at trivial levels (<0.01% of ‘unmutated’ alignments, in each case). There were 1394 different CDR3s associated with the inference, including 614 different CDR3s associated with unmutated alignments. The committee agreed that the sequence should be accepted as a Level 1 sequence as IGHV3-21*i01. In line with previous policy, the submitted sequence is recognized up to and including nucleotide 319. A trailing “.” in the affirmed sequence indicates IARC’s opinion that the sequence is likely to contain an additional 3’ nucleotide for which there is insufficient evidence to make an affirmation. Reanalysis of the original submission at Meeting 43 of the IARC on October 7, 2019 again identified the same novel allele IGHV3-21*01_S5868 (IGHV3-21*01 C159T C164A) with 9370 sequences and 5226 perfect matches and 628 Unique CDR3s with unmutated Seqs. In this analysis only one other allele of IGHV3-21 was seen (as very rare inferences had been removed by IgDiscover filtering), IGHV3-21*01 with 13799 sequences and 8576 perfect matches giving a 40:60 allelic ratio. These alleles were very well separated by IGHJ6-based haplotype analysis (1:99 and 99:1, respectively). The re-analysis thus confirmed the inference of IGHV3-21*i01 as a Level 1 sequence. In line with previous policy, the submitted sequence is recognized up to and including nucleotide 319. A trailing “.” in the affirmed sequence indicates IARC’s opinion that the sequence is likely to contain an additional 3’ nucleotide for which there is insufficient evidence to make an affirmation. Additional information for this sequence was imported into OGRDB via bulk update with the following notes: |
History logs the times and reasons for the publication of each version of this sequence.
Andrew Collins 2019-10-31 05:31:42 | Version 1 published This sequence was considered and affirmed at IARC Meetings 40 and 43. |
Mats Ohlin 2019-11-26 21:07:26 | Version 2 published Updated with IMGT name. |
William Lees 2023-07-10 11:24:37 | Version 3 published Bulk upload of sequences for the AIRR-C Human IG germline sets |
v2 | v3 | |
---|---|---|
Curator | William Lees | |
Curator address | School of Biotechnology and Biomolecular Sciences, University of New South Wales, Sydney Australia | Birkbeck College, University of London, Malet Street, London |
Sequence Name | IGHV3-21*i01 | IGHV3-21*05 |
Alternative names | IGHV3-21*i01 | |
Mapped | True | |
Functionality | F | ORF |
Species subgroup | ||
Subgroup type | ||
Allele Designation | i01 | 05 |
Full Sequence | ||
Paralog Rep | False | |
Extension? | False | True |
3' Extension | A | |
5' Extension | ||
curational_tags | likely_full-length | |
Notes | changed |
All published versions of this sequence.
Sequence Name | IMGT Name | Version | Date |
---|---|---|---|
IGHV3-21*i01 | 1 | 2019-10-31 | |
IGHV3-21*i01 | IGHV3-21*05 | 2 | 2019-11-26 |
IGHV3-21*05 | IGHV3-21*05 | 3 | 2023-07-10 |