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)

8 rows where transcript_id = 19749055

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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
105762605 GT-AG 0 1.000000099473604e-05 745 rna-XM_007445671.1 19749055 1 2791474 2792218 Lipotes vexillifer 118797 TCG|GTGAGTGTGC...GTCTTTTTGTTT/TTTGGAGGGAGC...TGAAG|TTG 0 1 1.542
105762606 GT-AG 0 1.000000099473604e-05 242244 rna-XM_007445671.1 19749055 2 2792305 3034548 Lipotes vexillifer 118797 GAG|GTAGGACCCC...GTTTCTTTTGCC/TTCCTTCTCACC...TGCAG|GAA 2 1 4.699
105762607 GT-AG 0 0.0021438656094629 37614 rna-XM_007445671.1 19749055 3 3034733 3072346 Lipotes vexillifer 118797 CAG|GTACCGTTCT...GTGGTTTGAGTA/GGTGGTTTGAGT...TTCAG|GTT 0 1 11.454
105762608 GT-AG 0 1.000000099473604e-05 3103 rna-XM_007445671.1 19749055 4 3072461 3075563 Lipotes vexillifer 118797 GAG|GTAAGGGGCT...GTGTCTGTGTCT/GCAAGGGTGACC...TCCAG|GTT 0 1 15.639
105762609 GT-AG 0 1.000000099473604e-05 2976 rna-XM_007445671.1 19749055 5 3075702 3078677 Lipotes vexillifer 118797 CAG|GTGAGCGTGG...TTCCTCCTGACG/TTCCTCCTGACG...CGCAG|TGC 0 1 20.705
105762610 GT-AG 0 1.000000099473604e-05 5026 rna-XM_007445671.1 19749055 6 3078882 3083907 Lipotes vexillifer 118797 GAG|GTCAGAGTCC...TGGCTCTTATCC/TACATTCTCATG...TCCAG|ATC 0 1 28.194
105762611 GT-AG 0 1.000000099473604e-05 4869 rna-XM_007445671.1 19749055 7 3084095 3088963 Lipotes vexillifer 118797 TAG|GTGAGGCAAC...TTTCTCTTCTTT/AGCCTCTTCATT...CCCAG|GGA 1 1 35.059
105762612 GT-AG 0 1.000000099473604e-05 43754 rna-XM_007445671.1 19749055 9 3089860 3133613 Lipotes vexillifer 118797 CAG|GTGAGTTCTG...TTTGTATTAACC/TTTGTATTAACC...CCCAG|GTC 1 1 67.878

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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]);