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)

7 rows where transcript_id = 38015444

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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
209849072 GT-AG 0 1.8364711571226403e-05 1089 rna-XM_028070636.1 38015444 2 40620149 40621237 Vigna unguiculata 3917 ATG|GTACTTCGTG...TTATTCTCATTG/TTTATTCTCATT...TGTAG|GAA 0 1 4.421
209849073 GT-AG 0 1.000000099473604e-05 353 rna-XM_028070636.1 38015444 3 40621312 40621664 Vigna unguiculata 3917 GAG|GTTGGTTATG...TGTATCTTACAT/CTGTATCTTACA...TGCAG|AGA 2 1 5.527
209849074 GT-AG 0 0.0001847880272598 210 rna-XM_028070636.1 38015444 4 40624732 40624941 Vigna unguiculata 3917 CAG|GTATTGTAGT...TGCTCCTTTATG/TTATTTCTGATT...TGCAG|ATT 0 1 51.337
209849075 GT-AG 0 1.000000099473604e-05 653 rna-XM_028070636.1 38015444 5 40627487 40628139 Vigna unguiculata 3917 CTG|GTGAGCTATG...CCTATTTTAATT/CCTATTTTAATT...TTTAG|CTG 1 1 89.35
209849076 GT-AG 0 0.0008100773088373 575 rna-XM_028070636.1 38015444 6 40628595 40629169 Vigna unguiculata 3917 AAG|GTATTTTAAT...TCCTCCTCGAAA/AATGTGCTAATA...GTTAG|GTG 0 1 96.146
209849077 GT-AG 0 1.000000099473604e-05 104 rna-XM_028070636.1 38015444 7 40629287 40629390 Vigna unguiculata 3917 AAG|GTAATTGTGG...TTATTTTTATCT/ATTATTTTTATC...GACAG|AGT 0 1 97.894
209859991 GT-AG 0 2.71345933742954e-05 381 rna-XM_028070636.1 38015444 1 40619608 40619988 Vigna unguiculata 3917 AAG|GTGTTTTCCA...TGAATCTGAATT/TGGTGATTCATT...GACAG|GGA   0 4.376

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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]);