Details

SpeciesHuman
Species subgroup
Subgroup type
Sequence NameIGLV6-57*04
IUIS NameIGLV6-57*04
Alternative namesIGLV6-57*i01
Affirmation Level1
Full Sequence
Coding Sequence
FunctionalityORF
Inference TypeGenomic and rearranged
MappedFalse
Paralogs
Paralog RepFalse

Observations in VDJbase

Inferred sequences in VDJbase that match this sequence:

VDJbase Allele NameSubjectsSequence Match
IGLV6-57*03_c21g 47

Un-rearranged Observations

Un-rearranged sequence observations that support this sequence:

AccessionTypeRepositoryStartEnd
MK308866InferredGenBank1294

CDR delineation

CDR1 Start138
CDR1 End161
CDR2 Start213
CDR2 End221
CDR3 Start336

Non-Core Regions

UTR 5' Start
UTR 5' End
L-PART1 Start
L-PART1 End
L_PART1
L-PART2 Start52
L-PART2 End62
L_PART2GTTCTTGGGCC
v_rs_start359
v_rs_end397
V_HEPTAMERCACAGTG
V_NONAMERACAGAAACT

Extension

3' ExtensionCA
3' start
3' end
5' start
5' end

Additional Information

Sequence IDA00059
CuratorWilliam Lees
Curator addressBirkbeck College, University of London, Malet Street, London
Version3
Release Date2023-07-10
Release Notes

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

LocusIGL
Sequence TypeV
Gene Subgroup6
Gene Designation57
Allele Designation04

Acknowledgements

Individuals acknowledged as contributing to this sequence:

No Items

Notes

Notes are added by IARC reviewers.

At the IARC meeting on July 20th 2020, the following features of the inference in the S000028 submission were noted:

The sequence was seen in 1.49% of all unmutated rearrangements, with 14,472 sequences including 1776 perfect alignments to the inferred allele. There was abundant variation in the CDR3 regions of the aligned sequences. The IGLV6-57*01 allele was also present in the genotype, at a somewhat lower frequency. Haplotype data is unavailable. Plots of the final 3’ nucleotides were considered, but the variability seen made it impossible to be certain of the final two nucleotides of the germline sequence. The sequence, up to and including nucleotide 333, was affirmed as the Level 1 sequence, IGLV6-57*i01. Uncertainty regarding nucleotides 334-335 will be indicated in IARC and OGRDB publications by two dots at the end of the affirmed sequence.

Additional information for this sequence was imported into OGRDB via bulk update with the following notes:
Sequence annotation is based on Genbank sample MW316677

Attachments

No Items

History

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

Andrew Collins
2020-08-01 13:19:38
Version 1 published

Published by the IARC on 1/8/2020.

William Lees
2020-08-10 15:55:56
Version 2 published

Correct sequence name from IGLV-6-57*i01

Mats Ohlin
2021-04-29 22:32:20
IMGT Name updated to IGLV6-57*04

IMGT Name updated.

William Lees
2023-07-10 11:24:48
Version 3 published

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

Changes from previous version

v2v3
CuratorWilliam Lees
Curator addressSchool of Biotechnology and Biomolecular Sciences, University of New South Wales, Sydney AustraliaBirkbeck College, University of London, Malet Street, London
Sequence NameIGLV6-57*i01IGLV6-57*04
Alternative namesIGLV6-57*i01
MappedFalse
FunctionalityFORF
Inference TypeRearranged OnlyGenomic and rearranged
Species subgroup
Subgroup type
Gene Subgroup-66
Allele Designationi0104
Full Sequence
Gene start163
Gene end294356
L-PART2 Start52
L-PART2 End62
CDR1 Start76138
CDR1 End99161
CDR2 Start151213
CDR2 End159221
CDR3 Start274336
v_rs_start359
v_rs_end397
Paralog RepFalse
Extension?FalseTrue
3' ExtensionCA
5' Extension
curational_tagslikely_full-length
Noteschanged

Versions

All published versions of this sequence.

Sequence NameIMGT NameAlternative namesInference TypeAffirmation LevelSpecies subgroupSubgroup typeVersionDate
IGLV-6-57*i01Rearranged Only112020-08-01
IGLV6-57*i01IGLV6-57*04Rearranged Only122020-08-10
IGLV6-57*04IGLV6-57*04IGLV6-57*i01Genomic and rearranged132023-07-10
IGLV6-57*04IGLV6-57*04IGLV6-57*i01Genomic and rearranged1none42024-02-22