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 = 14424069

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Suggested facets: score, phase

id ▼ dinucleotide_pair is_minor score length transcript_id ordinal_index start end taxonomy_id scored_motifs phase in_cds relative_position
77102081 GT-AG 0 0.0014857572093742 155 rna-XM_024149474.1 14424069 1 14773521 14773675 Eutrema salsugineum 72664 ATG|GTATTGTTGC...AATCTCTCAATG/AAATCTCTCAAT...CGCAG|CTC 0 1 11.862
77102082 GT-AG 0 0.0001956628234512 91 rna-XM_024149474.1 14424069 2 14773320 14773410 Eutrema salsugineum 72664 GAG|GTAACGTGCA...ATCTTCTTCTCT/TTATAACTGATT...ACCAG|CGA 2 1 14.615
77102083 GT-AG 0 1.000000099473604e-05 208 rna-XM_024149474.1 14424069 3 14772936 14773143 Eutrema salsugineum 72664 TAG|GTTCGTATGA...TTTTTTTTAATT/TTTTTTTTAATT...TGTAG|CCC 1 1 19.019
77102084 GT-AG 0 1.000000099473604e-05 381 rna-XM_024149474.1 14424069 4 14772255 14772635 Eutrema salsugineum 72664 CAG|GTAATGGCAG...ATCTCCTTTTCA/AAGTATCTGACT...AACAG|AAT 1 1 26.527
77102085 GT-AG 0 0.0097287842730227 101 rna-XM_024149474.1 14424069 5 14771187 14771287 Eutrema salsugineum 72664 CAG|GTAACTTACT...TTTTCCTTATAT/CTTTTCCTTATA...TGCAG|GCT 2 1 50.726
77102086 GT-AG 0 1.000000099473604e-05 82 rna-XM_024149474.1 14424069 6 14770390 14770471 Eutrema salsugineum 72664 AAG|GTGTGACGGC...TTCATTTTGATT/TTCATTTTGATT...TGTAG|TTG 0 1 68.619
77102087 GT-AG 0 0.008799061490435 72 rna-XM_024149474.1 14424069 7 14770037 14770108 Eutrema salsugineum 72664 AAG|GTAGCTTCTG...GTCTCTCTGACT/GTCTCTCTGACT...TGTAG|CCT 2 1 75.651
77102088 GT-AG 0 1.000000099473604e-05 80 rna-XM_024149474.1 14424069 8 14769287 14769366 Eutrema salsugineum 72664 CAG|GTTAGTAACG...ATCTCATTGATG/ATCAATCTCATT...TGCAG|GCA 0 1 92.417

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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]);