Details

SpeciesHuman
Species subgroup
Subgroup type
Sequence NameIGKV1D-8*i01
IUIS NameIGKV1D-8*04
Alternative names
Affirmation Level1
Full Sequence
Coding Sequence
FunctionalityF
Inference TypeRearranged Only
Mapped
Paralogs
Paralog Rep

Un-rearranged Observations

Un-rearranged sequence observations that support this sequence:

No Items

Observations in AIRR-seq Repertoires

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.

Additional Information

Sequence IDA00052
Curator
Curator addressDept. of Immunotechnology, Lund University, Medicon Village building 406, S-22381 Lund, Sweden
Version1
Release Date2020-08-01
Release Notes

Published by IARC on 1/8/2020.

LocusIGK
Sequence TypeV
Gene Subgroup1D
Gene Designation8
Allele Designationi01

Acknowledgements

Individuals acknowledged as contributing to this sequence:

NameInstitutionORCID ID
Néstor Vázquez BernatKarolinska Institutet SE-171 77 Stockholm

Notes

Notes are added by IARC reviewers.

This inference was considered at IARC Meeting 49 on February 4th 2020, at which it was noted:

The sequence was seen in 0.3% of all unmutated rearrangements, with 747 sequences including 538 perfect matches to the inferred allele. There was abundant variation in the CDR3 regions of the aligned sequences, though relatively large numbers of sequences were clonally related (42 “Unique CDR3s with unmutated”). The IGKV1D-8*01 allele was also present in the genotype, at a similar frequency (0.4% of all unmutated sequences; 976 sequences; 758 unmutated sequences). It was noted that the select set available in SRA/ENA is very limited in size (essentially only representing 2 different rearrangements, either involving IGKJ1 or IGKJ2) as only full-length sequences (covering all bases of the V gene up to and including base 335) had been included in the submitted set. IGKV1-8*01 was also present at high frequency (7743 sequences), but this sequence has 12 nucleotide differences to the inference under consideration. Haplotype data is unavailable. Plots of the final 3’ nucleotides showed a high level of variability, making it impossible to determine the final three nucleotides with certainty. The sequence, up to and including nucleotide 332, was affirmed as a Level 1 sequence. Uncertainty regarding nucleotides 333-335 will be indicated in IARC and OGRDB publications by three dots at the end of the affirmed sequence.

Attachments

Supplementary Files
 

History

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

Andrew Collins
2020-08-01 13:31:50
Version 1 published

Published by IARC on 1/8/2020.

Mats Ohlin
2021-04-29 22:34:53
IMGT Name updated to IGKV1D-8*04

IMGT Name updated.

Versions

All published versions of this sequence.

Sequence NameIMGT NameAlternative namesInference TypeAffirmation LevelSpecies subgroupSubgroup typeVersionDate
IGKV1D-8*i01IGKV1D-8*04Rearranged Only112020-08-01
IGKV1D-8*04IGKV1D-8*04IGKV1D-8*i01Rearranged Only122023-07-10