Details

SpeciesHuman
Species subgroup
Subgroup type
Sequence NameIGHV4-59*i03
IUIS Name
Alternative names
Affirmation Level1
Full Sequence
Coding Sequence
FunctionalityORF
Inference TypeRearranged Only
MappedFalse
Paralogs
Paralog RepFalse

Observations in VDJbase

Inferred sequences in VDJbase that match this sequence:

VDJbase Allele NameSubjectsSequence Match
IGHV4-59*01_g267a 1

Un-rearranged Observations

Un-rearranged sequence observations that support this sequence:

AccessionTypeRepositoryStartEnd
OW151138InferredGenBank1292

Extension

3' ExtensionA
3' start
3' end

Additional Information

Sequence IDA02564
CuratorWilliam Lees
Curator addressBirkbeck College, University of London, Malet Street, London
Version2
Release Date2023-07-10
Release Notes

Bulk upload of sequences for the AIRR-C Human IG germline sets

LocusIGH
Sequence TypeV
Gene Subgroup4
Gene Designation59
Allele Designationi03

Acknowledgements

Individuals acknowledged as contributing to this sequence:

No Items

Notes

Notes are added by IARC reviewers.

This inference was assessed at IARC meeting 100 (June 8th, 2022) and meeting 101 (July 21st, 2022).

IGHV4-59*01_G267A was inferred in subject S36 (VDJ-base: P1_I39_S1). The genotype carried one other allele of IGHV4-59. This sample carries few IGHV reads. The inference was consequently supported by a relative small number of sequences (60) and unmutated sequences (43), a relatively low overall frequency in the unmutated population (0.58%) and a small but diverse set of unique CDR3s (43) in the unmutated sequence set. Its allelic ratio was 31%. Haplotyping based on allelic diversity in IGHJ6 was possible with excellent separation from reads associated to IGHV4-59*01 (IGHV4-59*01_G267A: 0:100; IGHV4-59*01: 100:0). IARC affirms the sequence at level 1 up to and including base 319 in agreement with past practice. It is acknowledged that the allele most likely carries one additional base, typically A at base position 320. A trailing “.” indicates IARC’s opinion that the sequence is likely to contain one additional 3’-nucleotides for which there is insufficient evidence to make an affirmation. The allele is given the name IGHV4-59*i03.

Additional information for this sequence was imported into OGRDB via bulk update with the following notes:
Sequence annotation is based on Genbank sample OW151138

Attachments

No Items

History

History logs the times and reasons for the publication of each version of this sequence.

Mats Ohlin
2022-09-28 10:41:40
Version 1 published

The allele was published by IARC on Sept 28, 2022.

William Lees
2023-07-10 11:24:41
Version 2 published

Bulk upload of sequences for the AIRR-C Human IG germline sets

Changes from previous version

v1v2
CuratorMats OhlinWilliam Lees
Curator addressDept. of Immunotechnology, Lund University, Medicon Village building 406, S-22381 Lund, SwedenBirkbeck College, University of London, Malet Street, London
Alternative namesIGHV4-59*01 G267A
Chromosome14
MappedFalse
FunctionalityFORF
Inference TypeRearrangedRearranged Only
Subgroup typenone
Full Sequence
Gene start1
Gene end292
Codon Frame1
Paralog RepFalse
Extension?FalseTrue
3' ExtensionA
5' Extension
curational_tagslikely_truncatedlikely_full-length
Noteschanged

Versions

All published versions of this sequence.

Sequence NameIMGT NameAlternative namesInference TypeAffirmation LevelSpecies subgroupSubgroup typeVersionDate
IGHV4-59*i03IGHV4-59*01 G267ARearranged1none12022-09-28
IGHV4-59*i03Rearranged Only122023-07-10