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 = 30057382

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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
168293921 GT-AG 0 1.000000099473604e-05 444 rna-XM_007419909.2 30057382 1 818377 818820 Python bivittatus 176946 AAG|GTGAGCTATT...GGTGACTTACTA/GGGTGACTTACT...CCCAG|ACG 2 1 0.678
168293922 GT-AG 0 0.0010163294309568 22054 rna-XM_007419909.2 30057382 2 818916 840969 Python bivittatus 176946 TTG|GTAACTGTTT...ATAACTCTGATG/ACTGGACTGATT...TACAG|ATA 1 1 4.466
168293923 GT-AG 0 1.000000099473604e-05 7538 rna-XM_007419909.2 30057382 3 842826 850363 Python bivittatus 176946 GGG|GTGAGTATTC...TGGCTTATAATT/TTCTGGCTTATA...TCCAG|CTG 0 1 78.469
168293924 GT-AG 0 6.558727953635838e-05 417 rna-XM_007419909.2 30057382 4 850540 850956 Python bivittatus 176946 CCA|GTAAGCAGTT...TTGTTTTTTTCC/TTTGGGGTCACT...ATCAG|GAA 2 1 85.486
168293925 GT-AG 0 1.8812815036731114e-05 145 rna-XM_007419909.2 30057382 5 851028 851172 Python bivittatus 176946 CAG|GTATGACCGG...ATTTCCTTTGCT/TCCCATCTAACA...CATAG|CAC 1 1 88.317
168293926 GT-AG 0 1.000000099473604e-05 914 rna-XM_007419909.2 30057382 6 851269 852182 Python bivittatus 176946 CAG|GTGAGTCCAG...CTGCCCTTCCCT/CAAATAATAACT...CTTAG|AAT 1 1 92.145
168293927 GT-AG 0 1.9412297729553803e-05 3009 rna-XM_007419909.2 30057382 7 852324 855332 Python bivittatus 176946 GAG|GTAAGCTTAA...TTTCACATGACT/CTCTGTTTCACA...TGCAG|AGC 1 1 97.767

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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]);