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ireceptor_sequence.yaml
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# This model defines ancillary information returned by iReceptor
# as part of the sequence API.
ireceptor_sequence_annotation_model:
type: object
properties:
junction_aa_length:
type: integer
description: >-
Length of JUNCTION in amino acids
ir_seq_id:
type: integer
description: |
e.g. 1
ir_seq_name:
type: string
ir_project_sample_id:
type: integer
description: |
e.g. 6
ir_id:
type: integer
description: |
e.g. 1
ir_sequence_id:
type: integer
description: |
e.g. 1
ir_vgene_string:
type: string
description: |
e.g IGHV4-59*01 or IGHV4-59*07
ir_vgene_family:
type: string
description: |
e.g. IGHV4
ir_vgene_gene:
type: string
description: |
e.g. IGHV4-59
ir_dgene_string:
type: string
description: |
e.g. Homsap IGHD3-10*01 F
ir_dgene_family:
type: string
description: |
e.g. IGHD3
ir_dgene_gene:
type: string
description: |
e.g. IGHD3-10
ir_jgene_string:
type: string
description: |
e.g. Homsap IGHJ4*02 F
ir_jgene_family:
type: string
description: |
e.g. IGHJ4
ir_jgene_gene:
type: string
description: |
e.g. IGHJ4
ir_functionality:
type: string
description: |
e.g. productive
ir_functionality_comment:
type: string
description: |
e.g. ""
ir_orientation:
type: string
description: |
e.g. +
ir_vgene_score:
type: integer
description: |
e.g. 1127
ir_vgene_probability:
type: integer
description: |
e.g. 95
ir_dregion_reading_frame:
type: integer
description: |
e.g. 2
ir_cdr1_length:
type: integer
description: |
e.g. 8
ir_cdr2_length:
type: integer
description: |
e.g. 7
ir_cdr3_length:
type: integer
description: |
e.g. 13
ir_vdjregion_sequence_nt:
type: string
description: |
vdj region nucleotide sequence
ir_vjregion_sequence_nt:
type: string
description: |
vj region nucleotide sequence
ir_djregion_sequence_nt:
type: string
description: |
dj region nucleotide sequence
ir_vregion_sequence_nt:
type: string
description: |
v region nucleotide sequence
ir_dregion_sequence_nt:
type: string
description: |
d region nucleotide sequence
ir_jregion_sequence_nt:
type: string
description: |
j region nucleotide sequence
ir_fr1region_sequence_nt:
type: string
description: |
fr1 region nucleotide sequence
ir_fr2region_sequence_nt:
type: string
description: |
fr2 region nucleotide sequence
ir_fr3region_sequence_nt:
type: string
description: |
fr3 region nucleotide sequence
ir_fr4region_sequence_nt:
type: string
description: |
fr4 region nucleotide sequence
ir_cdr1region_sequence_nt:
type: string
description: |
cdr1 region nucleotide sequence
ir_cdr2region_sequence_nt:
type: string
description: |
cdr2 region nucleotide sequence
ir_cdr3region_sequence_nt:
type: string
description: |
cdr3 region nucleotide sequence
ir_vdjregion_sequence_nt_gapped:
type: string
description: |
gapped vdj region nucleotide sequence
ir_vjregion_sequence_nt_gapped:
type: string
description: |
gapped vj region nucleotide sequence
ir_djregion_sequence_nt_gapped:
type: string
description: |
gapped dj region nucleotide sequence
ir_vregion_sequence_nt_gapped:
type: string
description: |
gapped v region nucleotide sequence
ir_dregion_sequence_nt_gapped:
type: string
description: |
gapped d region nucleotide sequence
ir_jregion_sequence_nt_gapped:
type: string
description: |
gapped j region nucleotide sequence
ir_fr1region_sequence_nt_gapped:
type: string
description: |
gapped fr1 region nucleotide sequence
ir_fr2region_sequence_nt_gapped:
type: string
description: |
gapped fr2 region nucleotide sequence
ir_fr3region_sequence_nt_gapped:
type: string
description: |
gapped fr3 region nucleotide sequence
ir_fr4region_sequence_nt_gapped:
type: string
description: |
gapped fr4 region nucleotide sequence
ir_cdr1region_sequence_nt_gapped:
type: string
description: |
gapped cdr1 region nucleotide sequence
ir_cdr2region_sequence_nt_gapped:
type: string
description: |
gapped cdr2 region nucleotide sequence
ir_cdr3region_sequence_nt_gapped:
type: string
description: |
gapped cdr3 region nucleotide sequence
ir_junction_sequence_nt_gapped:
type: string
description: |
gapped junction nucleotide sequence
ir_vdjregion_sequence_aa:
type: string
description: |
vdj region amino acid sequence
ir_vjregion_sequence_aa:
type: string
description: |
vj region amino acid sequence
ir_djregion_sequence_aa:
type: string
description: |
dj region amino acid sequence
ir_vregion_sequence_aa:
type: string
description: |
v region amino acid sequence
ir_dregion_sequence_aa:
type: string
description: |
d region amino acid sequence
ir_jregion_sequence_aa:
type: string
description: |
j region amino acid sequence
ir_fr1region_sequence_aa:
type: string
description: |
fr1 region amino acid sequence
ir_fr2region_sequence_aa:
type: string
description: |
fr2 region amino acid sequence
ir_fr3region_sequence_aa:
type: string
description: |
fr3 region amino acid sequence
ir_fr4region_sequence_aa:
type: string
description: |
fr4 region amino acid sequence
ir_cdr1region_sequence_aa:
type: string
description: |
cdr1 region amino acid sequence
ir_cdr2region_sequence_aa:
type: string
description: |
cdr2 region amino acid sequence
ir_cdr3region_sequence_aa:
type: string
description: |
cdr3 region amino acid sequence
ir_vdjregion_sequence_aa_gapped:
type: string
description: |
gapped vdj region amino acid sequence
ir_vjregion_sequence_aa_gapped:
type: string
description: |
gapped vj region amino acid sequence
ir_djregion_sequence_aa_gapped:
type: string
description: |
gapped dj region amino acid sequence
ir_vregion_sequence_aa_gapped:
type: string
description: |
gapped v region amino acid sequence
ir_dregion_sequence_aa_gapped:
type: string
description: |
gapped d region amino acid sequence
ir_jregion_sequence_aa_gapped:
type: string
description: |
gapped j region amino acid sequence
ir_fr1region_sequence_aa_gapped:
type: string
description: |
gapped fr1 region amino acid sequence
ir_fr2region_sequence_aa_gapped:
type: string
description: |
gapped fr2 region amino acid sequence
fr3region_sequence_aa_gapped:
type: string
description: |
gapped fr3 region amino acid sequence
ir_fr4region_sequence_aa_gapped:
type: string
description: |
gapped fr4 region amino acid sequence
ir_cdr1region_sequence_aa_gapped:
type: string
description: |
gapped cdr1 region amino acid sequence
ir_cdr2region_sequence_aa_gapped:
type: string
description: |
gapped cdr2 region amino acid sequence
cdr3region_sequence_aa_gapped:
type: string
description: |
gapped cdr3 region amino acid sequence
ir_junction_sequence_aa_gapped:
type: string
description: |
gapped junction amino acid sequence
ir_vdjregion_start:
type: integer
description: |
e.g. 1
ir_vdjregion_end:
type: integer
description: |
e.g. 321
ir_vjregion_start:
type: integer
description: |
e.g. 0
ir_vjregion_end:
type: integer
description: |
e.g. 0
ir_djregion_start:
type: integer
description: |
e.g. 254
ir_djregion_end:
type: integer
description: |
e.g. 321
ir_vregion_start:
type: integer
description: |
e.g. 286
ir_vregion_end:
type: integer
description: |
e.g. 252
ir_dregion_start:
type: integer
description: |
e.g. 254
ir_dregion_end:
type: integer
description: |
e.g. 321
ir_jregion_start:
type: integer
description: |
e.g. 286
ir_jregion_end:
type: integer
description: |
e.g. 321
ir_fr1region_start:
type: integer
description: |
e.g. 1
fr1region_end:
type: integer
description: |
e.g. 38
ir_fr2region_start:
type: integer
description: |
e.g. 63
ir_fr2region_end:
type: integer
description: |
e.g. 113
ir_fr3region_start:
type: integer
description: |
e.g. 135
ir_fr3region_end:
type: integer
description: |
e.g. 248
ir_fr4region_start:
type: integer
description: |
e.g. 288
ir_fr4region_end:
type: integer
description: |
e.g. 321
ir_cdr1region_start:
type: integer
description: |
e.g. 39
ir_cdr1region_end:
type: integer
description: |
e.g. 321
ir_cdr2region_start:
type: integer
description: |
e.g. 62
ir_cdr2region_end:
type: integer
description: |
e.g. 134
ir_cdr3region_start:
type: integer
description: |
e.g. 249
ir_cdr3region_end:
type: integer
description: |
e.g. 287
ir_junction_start:
type: integer
description: |
e.g. 246
ir_junction_end:
type: integer
description: |
e.g. 290
ir_vregion_mutation_string:
type: string
description: >
e.g. a41>c|g42>t|c43>g,P15>A(- - -)|g51>t,E17>D(+ -
+)|a166>c,I56>L(+ + +)|t172>a,Y58>N(- -
-)|c195>t|c198>g,N66>K(+ - -)|a220>g,S74>G(+ +
-)|a229>t,T77>S(+ - +)|g275>c,S92>T(+ - +)|t279>c|
ir_fr1region_mutation_string:
type: string
description: |
e.g. a41>c|g42>t|c43>g,P15>A(- - -)|g51>t,E17>D(+ - +)|
ir_fr2region_mutation_string:
type: string
description: |
e.g.
ir_fr3region_mutation_string:
type: string
description: >
e.g. c198>g,N66>K(+ - -)|a220>g,S74>G(+ +
-)|a229>t,T77>S(+ - +)|g275>c,S92>T(+ - +)|t279>c|"
ir_cdr1region_mutation_string:
type: string
description: |
e.g.
ir_cdr2region_mutation_string:
type: string
description: |
e.g. a166>c,I56>L(+ + +)|t172>a,Y58>N(- - -)|c195>t|"
ir_cdr3region_mutation_string:
type: string
description: |
e.g. g317>c,R106>T(- - -)|a318>c,R106>T(- - -)|g319>t
ir_annotation_tool:
type: string
description: |
e.g. VQuest