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 = 12917289

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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
68847721 GT-AG 0 4.531932344876202e-05 149 rna-XM_009644789.2 12917289 1 2684955 2685103 Egretta garzetta 188379 GAA|GTACGTGTGC...TTAACTTTGAGC/TAACGATTAACT...TGCAG|GGT 2 1 26.882
68847722 GT-AG 0 0.0002826224457262 882 rna-XM_009644789.2 12917289 2 2683896 2684777 Egretta garzetta 188379 CAG|GTATGTGTGG...TTTTCTCTAACC/TTTTCTCTAACC...ACCAG|GTC 2 1 50.672
68847723 GT-AG 0 0.0013707438557148 89 rna-XM_009644789.2 12917289 3 2683732 2683820 Egretta garzetta 188379 GAG|GTGTGCTTAC...AACTCTTTAATT/CTTTAATTGACT...TGCAG|GTC 2 1 60.753
68847724 GT-AG 0 0.0003758152917002 366 rna-XM_009644789.2 12917289 4 2683264 2683629 Egretta garzetta 188379 AAG|GTACTTAGTA...TTTGTCTTAATT/TTTGTCTTAATT...TTCAG|GTC 2 1 74.462
68847725 GT-AG 0 1.000000099473604e-05 2167 rna-XM_009644789.2 12917289 5 2681043 2683209 Egretta garzetta 188379 CAG|GTAAGATCTC...GTTTCCCTGCTG/TCCCTGCTGAGC...TGTAG|GTC 2 1 81.72
68847726 GT-AG 0 1.000000099473604e-05 567 rna-XM_009644789.2 12917289 6 2680431 2680997 Egretta garzetta 188379 GAG|GTAAGCATAC...TTCCGTTTGACC/TTCCGTTTGACC...GACAG|TCG 2 1 87.769
68847727 GT-AG 0 0.0004887026606158 1127 rna-XM_009644789.2 12917289 7 2679268 2680394 Egretta garzetta 188379 AAG|GTATGTTGAT...GAAATGTTAACT/GAAATGTTAACT...TTCAG|TCG 2 1 92.608

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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]);