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 = 15198767

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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
82238946 GT-AG 0 1.000000099473604e-05 1817 rna-XM_031066788.1 15198767 1 24431140 24432956 Geospiza fortis 48883 AAA|GTAAGCGCGG...AGTGTTTCAACT/AAGTGTTTCAAC...TGCAG|TTA 0 1 4.064
82238947 GT-AG 0 1.000000099473604e-05 177 rna-XM_031066788.1 15198767 2 24430876 24431052 Geospiza fortis 48883 GAT|GTGAGTCACA...TGGGCATTACTA/ATTGCATTTACA...TCTAG|ATG 0 1 7.635
82238948 GT-AG 0 1.000000099473604e-05 1301 rna-XM_031066788.1 15198767 3 24429341 24430641 Geospiza fortis 48883 GAG|GTGATGGCAT...CATGTCTTACAA/CAAATTCTCATT...TATAG|GTT 0 1 17.241
82238949 GT-AG 0 0.0096173971263083 803 rna-XM_031066788.1 15198767 4 24428515 24429317 Geospiza fortis 48883 AAG|GTATATTTTT...GTTTTTTTCCTT/AAATGTTTAAGT...TCCAG|AAT 2 1 18.186
82238950 GT-AG 0 1.000000099473604e-05 560 rna-XM_031066788.1 15198767 5 24427809 24428368 Geospiza fortis 48883 AAG|GTGAGGAAGA...CTATCCTTATGT/ATATTGTTCATC...AATAG|AGC 1 1 24.179
82238951 GT-AG 0 0.0001773231766698 93 rna-XM_031066788.1 15198767 6 24427624 24427716 Geospiza fortis 48883 CTT|GTAAGTTATT...TTTGGCTTATCA/TTTTGGCTTATC...TTCAG|CCT 0 1 27.956
82238952 GT-AG 0 8.820131347606714e-05 1066 rna-XM_031066788.1 15198767 7 24426462 24427527 Geospiza fortis 48883 GAG|GTATGATTGA...AACCTCTGAATC/GATAATGTGATT...TCTAG|GAG 0 1 31.897

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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]);