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 = 26649266

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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
147771815 GT-AG 0 0.0015787284092321 85 PHUM603690-RA 26649266 1 1076090 1076174 Pediculus humanus 121224 TTA|GTAGTGTTTG...TTTTTTTTAAAT/TTTTTTTTAAAT...TAAAG|GTT 1 1 7.207
147771816 GT-AG 0 1.625568439869778e-05 68 PHUM603690-RA 26649266 2 1075868 1075935 Pediculus humanus 121224 CAA|GTAGGTATTG...TTTTGTTTAAAG/AAATTTGTAATT...TATAG|GGA 2 1 17.117
147771817 GT-AG 0 0.0050115123920946 74 PHUM603690-RA 26649266 3 1075646 1075719 Pediculus humanus 121224 GTC|GTATGTGTTT...GTACCTGTAATA/CGTCTTTTCATC...TGTAG|GGA 0 1 26.641
147771818 GT-AG 0 0.0007357657640743 98 PHUM603690-RA 26649266 4 1075293 1075390 Pediculus humanus 121224 CAG|GTATGCAAAC...TTATTATTAATC/TTATTATTAATC...GATAG|AAA 0 1 43.05
147771819 GT-AG 0 1.000000099473604e-05 78 PHUM603690-RA 26649266 5 1075000 1075077 Pediculus humanus 121224 CAG|GTAAATGTAC...AATTCCTCCTCT/GGGGGAGTAACA...TACAG|GTC 2 1 56.885
147771820 GT-AG 0 0.0001148669414295 119 PHUM603690-RA 26649266 6 1074714 1074832 Pediculus humanus 121224 CAG|GTACGATTTT...TTTATTTTAATG/TTTATTTTAATG...CAAAG|GAC 1 1 67.632
147771821 GT-AG 0 0.0003279298428215 81 PHUM603690-RA 26649266 7 1074514 1074594 Pediculus humanus 121224 CCG|GTAAACTATT...TCATCATTATCA/GTCGTTTTCATT...TAAAG|ATG 0 1 75.29

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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]);