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)

6 rows where transcript_id = 8322052

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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
44702045 GT-AG 0 1.000000099473604e-05 1745 rna-XM_006830648.1 8322052 1 11593197 11594941 Chrysochloris asiatica 185453 AAG|GTAAGTAGGG...GTTTCCTTTTTT/TCCTTTTTTATG...TTGAG|CAG 0 1 4.24
44702046 GT-AG 0 1.2335412891757596e-05 28499 rna-XM_006830648.1 8322052 2 11564493 11592991 Chrysochloris asiatica 185453 CAG|GTACAGTATC...CCATCGTTGATG/TGCGTACTGATT...TACAG|ATG 1 1 14.23
44702047 GT-AG 0 2.1072690636577076e-05 45427 rna-XM_006830648.1 8322052 3 11518868 11564294 Chrysochloris asiatica 185453 CAG|GTATGTGCAT...CATGCCTTCATG/CATGCCTTCATG...TGCAG|GGA 1 1 23.879
44702048 GT-AG 0 0.0008938224693979 6682 rna-XM_006830648.1 8322052 4 11512083 11518764 Chrysochloris asiatica 185453 CAA|GTAGGCACTG...AGGATCTTAACA/AGGATCTTAACA...CTCAG|TCG 2 1 28.899
44702049 GT-AG 0 1.000000099473604e-05 2206 rna-XM_006830648.1 8322052 5 11509673 11511878 Chrysochloris asiatica 185453 GAG|GTGAGTCCTG...TCACCTTTCATT/TCACCTTTCATT...TTCAG|GCG 2 1 38.84
44702050 GT-AG 0 1.000000099473604e-05 3127 rna-XM_006830648.1 8322052 6 11506396 11509522 Chrysochloris asiatica 185453 AAG|GTGAGTCCAC...TTTTTCTGAACC/ATTTTTCTGAAC...TCTAG|GGA 2 1 46.15

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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]);