Details

SpeciesHuman
Species subgroup
Subgroup type
Sequence NameIGHV4-61*i01
IUIS Name
Alternative names
Affirmation Level0
Full Sequence
Coding Sequence
FunctionalityF
Inference TypeRearranged Only
Alternative names
Paralogs

Evidence

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 IDAccession NoSubject IDGenotype NameSequence NameSequence Match
S00010 MK471380B12B12IGHV4-61*01_S7407

Supporting Observations

Sequences in other published genotypes which have been identified by IARC and support the inference:

No Items

Observations in VDJbase

Inferred sequences in VDJbase that match this sequence:

VDJbase Allele NameSubjectsSequence Match
IGHV4-61*10_c93t 1

Un-rearranged Observations

Un-rearranged sequence observations that support this sequence:

No Items

Additional Information

Sequence IDA00046
Curator addressDept. of Immunotechnology, Lund University, Medicon Village building 406, S-22381 Lund, Sweden
Version1
Release Date2019-12-12
Release Notes

Submission published by IARC on Dec 13, 2019.

LocusIGH
Sequence TypeV
Gene Subgroup4
Gene Designation61
Allele Designationi01

Acknowledgements

Individuals acknowledged as contributing to this sequence:

NameInstitutionORCID ID
Davide Bagnaradavide.bagnara@edu.unige.it
Martin CorcoranDepartment of Microbiology, Tumor and Cell Biology, Biomedicum, Karolinska Institute, Stockholm Sweden.

Notes

Notes are added by IARC reviewers.

Assessed by IARC on November 18, 2019 during meeting 45.

The committee considered IGHV4-61*01_S7407 (C93T, C136G, A138C) of Genotype B12 of submission S00010, which was previously evaluated as IGHV4-61*01_S9594 of submission S00004 at Meeting 10. It was affirmed as a Level 0 sequence at that time.

The sequence was seen in 0.93% of all unmutated rearrangements, with 5928 sequences including 1572 perfect matches to the inferred allele. There was abundant variation in the CDR3 regions of the aligned sequences. Two other alleles were present in the genotype, with IGHV4-61*01 and IGHV4-61*02 also being present in the haplotype with this allele. Haplotype data is generally supportive of the inference, but in light of the complex structural variation seen in this particular individual, such a duplication is not an unlikely event. However based on this complexity and the similarities of IGHV4-4, IGHV4-59 and IGHV4-61 sequences, the sequence was affirmed as a Level 0 sequence. In line with IARC policy, the submitted sequence was recognized up to and including nucleotide 319. It is likely that one additional 3’ nucleotide is present in the sequence, and this is indicated in IARC and OGRDB publications by one dot at the end of the sequence.

Attachments

Supplementary Files
 

History

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

Andrew Collins
2019-12-12 22:51:58
Version 1 published

Submission published by IARC on Dec 13, 2019.

Versions

All published versions of this sequence.

Sequence NameIMGT NameAlternative namesInference TypeAffirmation LevelSpecies subgroupSubgroup typeVersionDate
IGHV4-61*i01Rearranged Only012019-12-12