Details


Species	Human
Species subgroup
Subgroup type	none
Sequence Name	IGLV7-46*i01
IUIS Name	IGLV7-46*04
Alternative names	IGLV7-4601_S3303, IGLV7-4601_A213C
Affirmation Level	1
Full Sequence
Coding Sequence
Functionality	F
Inference Type	Rearranged
Alternative names	IGLV7-4601_S3303, IGLV7-4601_A213C
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 ID	Accession No	Subject ID	Genotype Name	Sequence Name	Sequence Match
S00028	MK308867	A007	A007 VL	IGLV7-46*01_S3303

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:

No Items

Un-rearranged Observations

Un-rearranged sequence observations that support this sequence:

Accession	Type	Repository	Start	End
OL352718	Locational	GenBank
MK587528	Nonlocational	GenBank	355	648

Non-Core Regions


UTR 5' Start
UTR 5' End
L-PART1 Start
L-PART1 End
L-PART2 Start
L-PART2 End
v_rs_start
v_rs_end

Extension


3' Extension
3' start
3' end
5' start
5' end

Additional Information


Sequence ID	A00058
Curator address	School of Biotechnology and Biomolecular Sciences, University of New South Wales, Sydney Australia
Version	1
Release Date	2022-11-18
Release Notes	Published on Nov 18, 2022
Locus	IGL
Sequence Type	V
Gene Subgroup	7
Gene Designation	46
Allele Designation	i01

Acknowledgements

Individuals acknowledged as contributing to this sequence:

Name	Institution	ORCID ID
Néstor Vázquez Bernat	Karolinska Institutet SE-171 77 Stockholm

Notes

Notes are added by IARC reviewers.


IARC Meeting 57 (July 7th 2020): The meeting considered the inference of a variant of the IGLV7-46 sequence in Genotype A007 VL, Submission S00028. The variant was present at a relatively low frequency, being seen in just 0.03% of all unmutated rearrangements, with a total of 656 alignments including 31 perfect alignments to the inferred allele. The submitted sequence was rejected by the committee as supporting inference data was insufficient. IARC Meeting 58 (July 20th 2020): The meeting re-considered the inference of the variant IGLV7-46 sequence in Genotype A007 VL, Submission S00028. This sequence had been rejected at the previous IARC meeting because of insufficient data – a low percentage of apparently unmutated sequences, and a low total number of sequences aligned to the variant. The sequence has been independently reported in Genbank, and a genomic sequence has been submitted to Genbank. The IARC members all agreed that the sequence is likely to be a real variant. Discussion again resulted in agreement that it is the task of the IARC to evaluate the data that is before it, though it was also agreed that other separate evidence can be noted. As a consequence it was agreed that the sequence should be affirmed as a Level 0 sequence. IARC Meeting 102 (July 26, 2022) As IGLV7-46i01 now features in the IMGT database as IGLV7-4604 with additional, independent genomic support (GenBank: OL352718) it is promoted to level 1. IARC Meeting 106 (Sept 27th, 2022) IGHV7-46i01 was originally considered at IARC meetings 57 and 58 and affirmed as a level 0 sequence. Following its inclusion into IMGT based on genomic sequence data it was elevated to level 1 at IARC meeting 102. The affirmed 3’-end was however never considered. It was decided that the inferred allele at the present stage should not be released into the public domain of OGRDB based on supporting genomic evidence (GenBank: OL352718) of data of an unrelated subject until a subsequent decision on the integration of genomic and transcriptomic data can has been made (to be discussed at a subsequent meeting). IARC Meeting 107 (Oct 19, 2022) Decision: The IGLV7-46i01 allele (full length) is approved and moved to level 1 based on its own merits (inference) in combination with genomic data from the subject in question (genomic sequence amplified by PCR (GenBank MK587528) and another subject. A process for incorporation of Sanger-based genomic data in IARC’s decision-making process will be discussed and established. A process for incorporating genomic data of other origin in IARC’s decision-making process will be discussed and established through discussion with data generators.

IARC Meeting 57 (July 7th 2020):
The meeting considered the inference of a variant of the IGLV7-46 sequence in Genotype A007 VL, Submission S00028. The variant was present at a relatively low frequency, being seen in just 0.03% of all unmutated rearrangements, with a total of 656 alignments including 31 perfect alignments to the inferred allele. The submitted sequence was rejected by the committee as supporting inference data was insufficient.

IARC Meeting 58 (July 20th 2020):
The meeting re-considered the inference of the variant IGLV7-46 sequence in Genotype A007 VL, Submission S00028. This sequence had been rejected at the previous IARC meeting because of insufficient data – a low percentage of apparently unmutated sequences, and a low total number of sequences aligned to the variant. The sequence has been independently reported in Genbank, and a genomic sequence has been submitted to
Genbank. The IARC members all agreed that the sequence is likely to be a real variant. Discussion again resulted in agreement that it is the task of the IARC to evaluate the data that is before it, though it was also agreed that other separate evidence can be noted. As a consequence it was agreed that the sequence should be affirmed as a Level 0 sequence.

IARC Meeting 102 (July 26, 2022)
As IGLV7-46*i01 now features in the IMGT database as IGLV7-46*04 with additional, independent genomic support (GenBank: OL352718) it is promoted to level 1.

IARC Meeting 106 (Sept 27th, 2022)
IGHV7-46*i01 was originally considered at IARC meetings 57 and 58 and affirmed as a level 0 sequence. Following its inclusion into IMGT based on genomic sequence data it was elevated to level 1 at IARC meeting 102. The affirmed 3’-end was however never considered. It was decided that the inferred allele at the present stage should not be released into the public domain of OGRDB based on supporting genomic evidence (GenBank: OL352718) of data of an unrelated subject until a subsequent decision on the integration of genomic and transcriptomic data can has been made (to be discussed at a subsequent meeting).

IARC Meeting 107 (Oct 19, 2022)
Decision:

The IGLV7-46*i01 allele (full length) is approved and moved to level 1 based on its own merits (inference) in combination with genomic data from the subject in question (genomic sequence amplified by PCR (GenBank MK587528) and another subject.
A process for incorporation of Sanger-based genomic data in IARC’s decision-making process will be discussed and established.
A process for incorporating genomic data of other origin in IARC’s decision-making process will be discussed and established through discussion with data generators.

Attachments

	Supplementary Files

History

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


Mats Ohlin 2022-11-18 07:31:28	Version 1 published Published on Nov 18, 2022

Versions

All published versions of this sequence.

Sequence Name	IMGT Name	Alternative names	Inference Type	Affirmation Level	Species subgroup	Subgroup type	Version	Date
IGLV7-46*i01	IGLV7-46*04	IGLV7-4601_S3303, IGLV7-4601_A213C	Rearranged	1		none	1	2022-11-18