Details


Species	Human
Species subgroup
Subgroup type
Sequence Name	IGHV4-61*10
IUIS Name	IGHV4-61*10
Alternative names	IGHV4-61*i02
Affirmation Level	1
Full Sequence
Coding Sequence
Functionality	ORF
Inference Type	Rearranged Only
Mapped	False
Paralogs
Paralog Rep	False

Un-rearranged Observations

Un-rearranged sequence observations that support this sequence:

Accession	Type	Repository	Start	End
MK471386	Inferred	GenBank	1	298

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.

CDR delineation


CDR1 Start	76
CDR1 End	105
CDR2 Start	157
CDR2 End	177
CDR3 Start	292

Extension


3' Extension	A
3' start
3' end

Additional Information


Sequence ID	A00049
Curator	William Lees
Curator address	Birkbeck College, University of London, Malet Street, London
Version	2
Release Date	2023-07-10
Release Notes	Bulk upload of sequences for the AIRR-C Human IG germline sets
Locus	IGH
Sequence Type	V
Gene Subgroup	4
Gene Designation	61
Allele Designation	10

Acknowledgements

Individuals acknowledged as contributing to this sequence:

No Items

Notes

Notes are added by IARC reviewers.


Assessed by IARC on November 18, 2019 during meeting 45 and on December 2, 2019 during meeting 46. The committee considered IGHV4-6101_S5549 (C136G A138G) of Genotype B16 of submission S00010, which was previously evaluated as IGHV4-6101_S0787 of submission S00006 at Meeting 12. It was affirmed as a Level 0 sequence at that time. The sequence was seen in 1.68% of all unmutated rearrangements, with 11,785 sequences including 4732 perfect matches to the inferred allele. There was abundant variation in the CDR3 regions of the aligned sequences. No other allele of IGHV4-61 was present in the genotype. Haplotype data is supportive of the inference, with the sequence being strongly associated with one haplotype. However, two alleles of IGHV4-4 (a gene closely related to IGHV4-61) were present on the other haplotype, highlighting the possibility that one of these alleles might be an allele of IGHV4-61. There was strong support for the sequence being affirmed up to and including nucleotide 319, in line with IARC policy, as a Level 1 sequence, with one additional 3’ nucleotide being likely present in the sequence. This is indicated in IARC and OGRDB publications by one dot at the end of the sequence. Additional information for this sequence was imported into OGRDB via bulk update with the following notes: Sequence annotation is based on Genbank sample MK471386

Assessed by IARC on November 18, 2019 during meeting 45 and on December 2, 2019 during meeting 46.

The committee considered IGHV4-61*01_S5549 (C136G A138G) of Genotype B16 of submission S00010, which was previously evaluated as IGHV4-61*01_S0787 of submission S00006 at Meeting 12. It was affirmed as a Level 0 sequence at that time.

The sequence was seen in 1.68% of all unmutated rearrangements, with 11,785 sequences including 4732 perfect matches to the inferred allele. There was abundant variation in the CDR3 regions of the aligned sequences. No other allele of IGHV4-61 was present in the genotype. Haplotype data is supportive of the inference, with the sequence being strongly associated with one haplotype. However, two alleles of IGHV4-4 (a gene closely related to IGHV4-61) were present on the other haplotype, highlighting the possibility that one of these alleles might be an allele of IGHV4-61. There was strong support for the sequence being affirmed up to and including nucleotide 319, in line with IARC policy, as a Level 1 sequence, with one additional 3’ nucleotide being likely present in the sequence. This is indicated in IARC and OGRDB publications by one dot at the end of the sequence.

Additional information for this sequence was imported into OGRDB via bulk update with the following notes:
Sequence annotation is based on Genbank sample MK471386

Attachments

No Items

History

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


Andrew Collins 2019-12-12 22:52:18	Version 1 published Submission published by IARC on Dec 13, 2019.


Andrew Collins 2020-01-12 01:39:10	*IMGT Name updated to IGHV4-6110** IMGT Name updated.


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

	v1	v2
Curator		William Lees
Curator address	Dept. of Immunotechnology, Lund University, Medicon Village building 406, S-22381 Lund, Sweden	Birkbeck College, University of London, Malet Street, London
Sequence Name	IGHV4-61*i02	IGHV4-61*10
Alternative names		IGHV4-61*i02
Mapped		False
Functionality	F	ORF
Species subgroup
Subgroup type
Allele Designation	i02	10
Full Sequence
Paralog Rep		False
Extension?	False	True
3' Extension		A
5' Extension
curational_tags		likely_truncated
Notes		changed

Versions

All published versions of this sequence.

Sequence Name	IMGT Name	Alternative names	Inference Type	Affirmation Level	Species subgroup	Subgroup type	Gene start	Gene end	UTR 5' Start	UTR 5' End	L-PART1 Start	L-PART1 End	L-PART2 Start	L-PART2 End	CDR1 Start	CDR1 End	CDR2 Start	CDR2 End	CDR3 Start	v_rs_start	v_rs_end	d_rs_3_prime_start	d_rs_3_prime_end	d_rs_5_prime_start	d_rs_5_prime_end	j_rs_start	j_rs_end	Codon Frame	Version	Date
IGHV4-61*i02	IGHV4-61*10		Rearranged Only	1			1	298							76	105	157	177	292										1	2019-12-12
IGHV4-61*10	IGHV4-61*10	IGHV4-61*i02	Rearranged Only	1			1	298							76	105	157	177	292										2	2023-07-10