introns

Data license: ODbL · Data source: Larue & Roy, 2023 · About: Minor Intron Database (WtMTA)

id
INTEGER (primary key), globally unique identifier for each intron
dinucleotide_pair
TEXT, terminal dinucleotide sequences of the intron
is_minor
INTEGER, indicates if the intron is a minor intron (1) or not (0)
score
REAL, score representing the probability (0-100%) of the intron being minor
length
INTEGER, length of the intron in base pairs
transcript_id
INTEGER (foreign key referencing transcripts(id)), parent transcript
ordinal_index
INTEGER, ordinal position of the intron within the transcript (e.g., 3 for the third intron)
start
INTEGER, start position of the intron in the genome
end
INTEGER, end position of the intron in the genome
taxonomy_id
INTEGER (foreign key referencing genomes(taxonomy_id)), NCBI taxonomy identifier for species
scored_motifs
TEXT, motifs scored for the intron
phase
INTEGER, phase of the intron in coding sequence (0, 1, or 2 or null for introns outside of coding sequence)
in_cds
INTEGER, indicates if the intron is within the coding sequence (1) or not (0; e.g., UTR introns)
relative_position
REAL, relative position of the intron within the transcript (as a percentage of coding length)

8 rows where transcript_id = 8116017

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id ▼ dinucleotide_pair is_minor score length transcript_id ordinal_index start end taxonomy_id scored_motifs phase in_cds relative_position
43326226 GT-AG 0 0.0024212503519074 1182 rna-XM_010121514.1 8116017 1 377 1558 Chlamydotis macqueenii 187382 TCA|GTAAGTTTGA...TTCTTCTTATAA/ATTCTTCTTATA...CTTAG|ATT 0 1 12.687
43326227 GT-AG 0 1.2177381853622216e-05 1679 rna-XM_010121514.1 8116017 2 1649 3327 Chlamydotis macqueenii 187382 CAG|GTACAAAATG...TTTGTTTTAATT/TTTGTTTTAATT...CTCAG|AGC 0 1 26.119
43326228 GT-AG 0 1.000000099473604e-05 167 rna-XM_010121514.1 8116017 3 3388 3554 Chlamydotis macqueenii 187382 ATA|GTGAGTAGAA...AAAACTTTGAAA/AAAACTTTGAAA...TGTAG|CCA 0 1 35.075
43326229 GT-AG 0 1.000000099473604e-05 1161 rna-XM_010121514.1 8116017 4 3666 4826 Chlamydotis macqueenii 187382 AAG|GTGAGTATAG...CATTTTCTAACT/CATTTTCTAACT...TTCAG|GTG 0 1 51.642
43326230 GT-AG 0 1.000000099473604e-05 730 rna-XM_010121514.1 8116017 5 4872 5601 Chlamydotis macqueenii 187382 CAG|GTAAGTCCAC...TGTCTCTTTCTG/AGGTATTGTATT...TGAAG|GCA 0 1 58.358
43326231 GT-AG 0 0.0002323927657084 1322 rna-XM_010121514.1 8116017 6 5671 6992 Chlamydotis macqueenii 187382 CTG|GTAATTTTTA...AAAACTTTATTT/CTTTATTTGAAT...CACAG|GGT 0 1 68.657
43326232 GT-AG 0 1.000000099473604e-05 195 rna-XM_010121514.1 8116017 7 7104 7298 Chlamydotis macqueenii 187382 GAG|GTAAGATTTA...TTCTATTTGACA/TATTTATTTATC...TTCAG|GAG 0 1 85.224
43326233 GT-AG 0 1.000000099473604e-05 306 rna-XM_010121514.1 8116017 8 7358 7663 Chlamydotis macqueenii 187382 CAG|GTAATGCAAC...GTTGCATTAGAA/AAGTTTCTCACA...ACCAG|GTA 2 1 94.03

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CREATE TABLE "introns" (
"id" INTEGER,
  "dinucleotide_pair" TEXT,
  "is_minor" INTEGER,
  "score" REAL,
  "length" INTEGER,
  "transcript_id" INTEGER,
  "ordinal_index" INTEGER,
  "start" INTEGER,
  "end" INTEGER,
  "taxonomy_id" INTEGER,
  "scored_motifs" TEXT,
  "phase" INTEGER,
  "in_cds" INTEGER,
  "relative_position" REAL
  ,PRIMARY KEY ([id]),
   FOREIGN KEY([transcript_id]) REFERENCES [transcripts]([id]),
   FOREIGN KEY([taxonomy_id]) REFERENCES [genomes]([taxonomy_id])
);
CREATE INDEX [idx_introns_transcript_id]
    ON [introns] ([transcript_id]);
CREATE INDEX [idx_introns_taxonomy_id]
    ON [introns] ([taxonomy_id]);
CREATE INDEX [idx_introns_phase]
    ON [introns] ([phase]);
CREATE INDEX [idx_introns_is_minor]
    ON [introns] ([is_minor]);
CREATE INDEX [idx_introns_dinucleotide_pair]
    ON [introns] ([dinucleotide_pair]);
CREATE INDEX [idx_introns_score]
    ON [introns] ([score]);
CREATE INDEX [idx_introns_in_cds]
    ON [introns] ([in_cds]);