Species | Homo sapiens |
Species subgroup | |
Subgroup type | |
Sequence Name | IGKV1D-8*04 |
IUIS Name | IGKV1D-8*04 |
Alternative names | IGKV1D-8*i01 |
Affirmation Level | 1 |
Full Sequence | |
Coding Sequence | |
Functionality | ORF |
Inference Type | Rearranged Only |
Mapped | False |
Paralogs | |
Paralog Rep | False |
Un-rearranged sequence observations that support this sequence:
Accession | Type | Repository | Start | End |
---|---|---|---|---|
MK308861 | Inferred | GenBank | 1 | 284 |
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.
CDR1 Start | 79 |
CDR1 End | 96 |
CDR2 Start | 148 |
CDR2 End | 156 |
CDR3 Start | 265 |
3' Extension | TCC |
3' start | |
3' end |
Sequence ID | A00052 |
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 | IGK |
Sequence Type | V |
Gene Subgroup | 1D |
Gene Designation | 8 |
Allele Designation | 04 |
Gene start | 1 |
Gene end | 284 |
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. 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.
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. |
William Lees 2023-07-10 11:24:43 | Version 2 published Bulk upload of sequences for the AIRR-C Human IG germline sets |
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 | IGKV1D-8*i01 | IGKV1D-8*04 |
Alternative names | IGKV1D-8*i01 | |
Mapped | False | |
Functionality | F | ORF |
Species subgroup | ||
Subgroup type | ||
Allele Designation | i01 | 04 |
Full Sequence | ||
Paralog Rep | False | |
Extension? | False | True |
3' Extension | TCC | |
5' Extension | ||
curational_tags | likely_full-length | |
Notes | changed |
All published versions of this sequence.
Sequence Name | IMGT Name | Version | Date |
---|---|---|---|
IGKV1D-8*i01 | IGKV1D-8*04 | 1 | 2020-08-01 |
IGKV1D-8*04 | IGKV1D-8*04 | 2 | 2023-07-10 |