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 = 21550676

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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
116463001 GT-AG 0 0.0003847210492595 7593 rna-XM_021635236.1 21550676 1 352194 359786 Meriones unguiculatus 10047 GCA|GTAAGTTTCC...TGGCCATTGAAG/GCCTGTGTGACC...CGCAG|CCG 1 1 29.075
116463002 GT-AG 0 1.000000099473604e-05 4058 rna-XM_021635236.1 21550676 2 348056 352113 Meriones unguiculatus 10047 AAG|GTAGGCCCTG...GTGTCCTCACTC/TGTGTCCTCACT...TTCAG|GGC 0 1 35.627
116463003 GT-AG 0 1.000000099473604e-05 1042 rna-XM_021635236.1 21550676 3 346939 347980 Meriones unguiculatus 10047 AAG|GTGAGGGTTA...CACACTTTCTCA/CACTTTCTCAGG...TCCAG|GCA 0 1 41.769
116463004 GT-AG 0 1.000000099473604e-05 89 rna-XM_021635236.1 21550676 4 346740 346828 Meriones unguiculatus 10047 GAG|GTGGGTGAGG...TGCCCATTGACT/TGCCCATTGACT...CCCAG|GAT 2 1 50.778
116463005 GT-AG 0 1.000000099473604e-05 3886 rna-XM_021635236.1 21550676 5 342727 346612 Meriones unguiculatus 10047 CCG|GTGAGTGGAG...GTCTGCTTAGCC/TGGAAGCAGACA...TGCAG|GTG 0 1 61.179
116463006 GT-AG 0 1.000000099473604e-05 3300 rna-XM_021635236.1 21550676 6 339269 342568 Meriones unguiculatus 10047 AAC|GTGAGTGTGT...TTGTCCCCAATT/CTGCAGCTCACA...TCCAG|ATA 2 1 74.12
116463007 GT-AG 0 1.000000099473604e-05 906 rna-XM_021635236.1 21550676 7 338281 339186 Meriones unguiculatus 10047 GAG|GTAGGGCCAT...GCGGCCTTGACT/TGACTCCTAACA...AGCAG|GAG 0 1 80.835
116463008 GT-AG 0 1.000000099473604e-05 446 rna-XM_021635236.1 21550676 8 337738 338183 Meriones unguiculatus 10047 TTG|GTAAGGAATC...GGTCACTGAATG/AGTGGGGTCACT...CACAG|GTG 1 1 88.78

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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]);