Species | Homo sapiens |
Species subgroup | |
Subgroup type | |
Sequence Name | IGHV4-61*i04 |
IUIS Name | |
Alternative names | |
Affirmation Level | 1 |
Full Sequence | |
Coding Sequence | |
Functionality | ORF |
Inference Type | Rearranged Only |
Mapped | True |
Paralogs | |
Paralog Rep | False |
Inferred sequences in VDJbase that match this sequence:
VDJbase Allele Name | Subjects | Sequence Match |
---|---|---|
IGHV4-61*01_a41g | 1 |
Un-rearranged sequence observations that support this sequence:
Accession | Type | Repository | Start | End |
---|---|---|---|---|
OX384050 | Inferred | GenBank | 1 | 297 |
CDR1 Start | 76 |
CDR1 End | 105 |
CDR2 Start | 157 |
CDR2 End | 177 |
CDR3 Start | 292 |
3' Extension | A |
3' start | |
3' end |
Sequence ID | A02567 |
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 | i04 |
Notes are added by IARC reviewers.
The inference of IGHV4-61*01_A41G was considered at IARC meeting 116 on Feb 27th, 2023. IGHV4-61*01_A41G has been inferred in one genotype (P1_I23) in VDJbase P1 data set. The genotype also carries IGHV4-61*01. IGHV4-61*01_A41G represents 0.32% of the total unmutated population. It is represented by 91 unmutated error-free sequences and 91 unique CDR3s of different lengths in the error-free set. Haplotyping based on allelic diversity in IGHJ6 demonstrates association of the haplotype defined by IGHJ6*02 (100:0 ratio) (IGHV4-61*01 shows a haplotype ratio of 7:93). Other genes carry alleles defined by IMGT, alleles that are highly similar to IGHV4-61*01 A41G. These genes include IGHV4-59 and IGHV4-4 (>97% sequence identity). In no case do these alleles carry the A41G SNP. IARC affirms the sequence as IGHV4-61*i04 at Level 1 up to and including base 319. It is acknowledged that the allele most likely carries 1 additional base, typically A, at base positions 320. Trailing “.” indicates IARC’s opinion that the sequence is likely to contain additional 3’-nucleotides for which there is insufficient evidence to make an affirmation. For use in a reference germline gene set, IARC recommends the use of the expected full length sequence. >IGHV4-61*i04 The locus on chromosome 14 that carries human IGHV genes is highly complex. Genes may be duplicated or deleted, and identical sequences may be found in more than one gene. The name (with an “i” allele designation) of an inferred allele does not imply that its precise genetic location is known. It just relates to the most similar allele presently found in the IMGT database, or to the gene with the lowest alphanumeric value, should alleles of multiple genes be equally matched to the novel allele in question. Other similar genes have been mentioned above. Additional information for this sequence was imported into OGRDB via bulk update with the following notes: |
History logs the times and reasons for the publication of each version of this sequence.
Mats Ohlin 2023-03-20 08:45:34 | Version 1 published Published by IARC on March 20th, 2023. |
William Lees 2023-07-10 11:24:42 | Version 2 published Bulk upload of sequences for the AIRR-C Human IG germline sets |
v1 | v2 | |
---|---|---|
Curator | Mats Ohlin | 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 |
Chromosome | 14 | |
Mapped | True | |
Functionality | F | ORF |
Inference Type | Rearranged | Rearranged Only |
Subgroup type | none | |
Full Sequence | ||
Codon Frame | 1 | |
Paralog Rep | False | |
Extension? | False | True |
3' Extension | A | |
5' Extension | ||
curational_tags | none | likely_truncated |
Notes | changed |
All published versions of this sequence.
Sequence Name | IMGT Name | Version | Date |
---|---|---|---|
IGHV4-61*i04 | 1 | 2023-03-20 | |
IGHV4-61*i04 | 2 | 2023-07-10 |