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 = 15495798

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Suggested facets: score, phase, in_cds

id ▼ dinucleotide_pair is_minor score length transcript_id ordinal_index start end taxonomy_id scored_motifs phase in_cds relative_position
83762751 GT-AG 0 1.000000099473604e-05 665 rna-XM_006573510.4 15495798 1 52054365 52055029 Glycine max 3847 CTG|GTAATGCAAA...CGATCTTTCATC/CGATCTTTCATC...TACAG|GAG 2 1 8.385
83762752 GT-AG 0 1.000000099473604e-05 74 rna-XM_006573510.4 15495798 2 52050993 52051066 Glycine max 3847 TCC|GTGAGTATCA...TAATTTTTGACA/TAATTTTTGACA...GACAG|GAT 0 1 81.156
83762753 GT-AG 0 1.000000099473604e-05 96 rna-XM_006573510.4 15495798 3 52050824 52050919 Glycine max 3847 GTG|GTGTGTAAAA...ATAATCTTAAAT/ATAATCTTAAAT...TGAAG|CTG 1 1 82.767
83762754 GT-AG 0 1.000000099473604e-05 80 rna-XM_006573510.4 15495798 4 52050649 52050728 Glycine max 3847 GCA|GTAAGATCTT...TTTTTCTGGAAA/ATAATGATGATT...TTCAG|GCT 0 1 84.863
83762755 GT-AG 0 1.988004068008161e-05 85 rna-XM_006573510.4 15495798 5 52050498 52050582 Glycine max 3847 AAT|GTAAGTACTC...GTTTCATTGATT/CTGTGTTTCATT...TGCAG|AGA 0 1 86.32
83762756 GT-AG 0 1.1300074387480972e-05 298 rna-XM_006573510.4 15495798 6 52050110 52050407 Glycine max 3847 TAT|GTAAGTGAAA...AAATTTTTAACT/AAATTTTTAACT...ATCAG|ATC 0 1 88.305
83762757 GT-AG 0 0.0002381388832707 710 rna-XM_006573510.4 15495798 7 52049223 52049932 Glycine max 3847 AAG|GTATGTAATG...TTATACTTAATG/ATTATACTTAAT...TTCAG|GAA 0 1 92.211
83770955 GT-AG 0 0.0011361130039131 1028 rna-XM_006573510.4 15495798 8 52048143 52049170 Glycine max 3847 CAG|GTCTGTTTTT...GTGGTTTTAATG/GTGATTCTCAGT...TTTAG|TGA   0 93.358

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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]);