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 = 19748978

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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
105761936 GT-AG 0 1.080906440172148e-05 95415 rna-XM_007445570.1 19748978 1 377952 473366 Lipotes vexillifer 118797 GCG|GTAAGTTTCT...TGTTCCTTTTGG/CAAGTACTGACA...TTCAG|TTT 2 1 56.993
105761937 GT-AG 0 1.000000099473604e-05 41220 rna-XM_007445570.1 19748978 2 473519 514738 Lipotes vexillifer 118797 AAG|GTAAAGGGTC...CTACTCTTATAT/TCTACTCTTATA...TCCAG|GAA 1 1 62.692
105761938 GT-AG 0 4.950284629141883e-05 19382 rna-XM_007445570.1 19748978 3 514856 534237 Lipotes vexillifer 118797 GAG|GTACAATATT...TTTCCCTTCTTT/TGGCCACTGATA...AATAG|CCC 1 1 67.079
105761939 GT-AG 0 1.000000099473604e-05 5839 rna-XM_007445570.1 19748978 4 534526 540364 Lipotes vexillifer 118797 CTG|GTAAGGAAAG...TCAGTCTGACCA/CTCAGTCTGACC...TCCAG|GCT 1 1 77.878
105761940 GT-AG 0 4.9969548566187554e-05 4023 rna-XM_007445570.1 19748978 5 540510 544532 Lipotes vexillifer 118797 TGA|GTAAGTGCTT...CTTTCCTTACTC/CCTTTCCTTACT...CCCAG|GTA 2 1 83.315
105761941 GT-AG 0 1.000000099473604e-05 859 rna-XM_007445570.1 19748978 6 544664 545522 Lipotes vexillifer 118797 TTA|GTAAGTGCCT...TCTGTCTTCATC/TCTGTCTTCATC...ATCAG|TTC 1 1 88.226
105761942 GT-AG 0 0.0002222108296461 668 rna-XM_007445570.1 19748978 7 545681 546348 Lipotes vexillifer 118797 CCT|GTAAGCAAAC...CCTCTCTTATTG/CCCTCTCTTATT...TGCAG|ATT 0 1 94.151

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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]);