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 = 34828598

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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
196137584 GT-AG 0 1.000000099473604e-05 468 rna-XM_025016030.1 34828598 1 81431 81898 Temnothorax curvispinosus 300111 ACC|GTGAGTATTC...AAGATTTTGATA/AAGATTTTGATA...TCCAG|AGT 1 1 1.039
196137585 GT-AG 0 1.000000099473604e-05 186 rna-XM_025016030.1 34828598 2 82241 82426 Temnothorax curvispinosus 300111 GAG|GTTAATGTCT...CATACTTTATAT/TTTATATTTATC...TTTAG|GCC 1 1 28.377
196137586 GT-AG 0 3.050560011487066e-05 1451 rna-XM_025016030.1 34828598 3 82503 83953 Temnothorax curvispinosus 300111 CAA|GTAAGTTTTA...CTGTCCATGAGT/AGTCAACTCATT...TTTAG|CAG 2 1 34.452
196137587 GT-AG 0 1.000000099473604e-05 1656 rna-XM_025016030.1 34828598 4 83986 85641 Temnothorax curvispinosus 300111 AAG|GTAAATGCAC...TTGTCTTTGACG/TTGTCTTTGACG...TGCAG|GAG 1 1 37.01
196137588 GT-AG 0 2.264429661398589e-05 205 rna-XM_025016030.1 34828598 5 85776 85980 Temnothorax curvispinosus 300111 AAA|GTACGTGCTC...TTGCATTTAAAT/TAAATGCTCAAT...TCCAG|AAT 0 1 47.722
196137589 GT-AG 0 1.000000099473604e-05 124 rna-XM_025016030.1 34828598 6 86325 86448 Temnothorax curvispinosus 300111 GAG|GTGACATACC...AATATCTTGTTA/TAGAAGATGATT...AACAG|ATG 2 1 75.22
196137590 GT-AG 0 9.451487075362834e-05 187 rna-XM_025016030.1 34828598 7 86719 86905 Temnothorax curvispinosus 300111 CGG|GTATGTCCTA...ATTTCCGCATTT/CATCGATTAACG...TTCAG|TCG 2 1 96.803

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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]);