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 = 12758578

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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
67904678 GT-AG 0 4.636935224286632e-05 783 rna-XM_022893785.1 12758578 1 7221165 7221947 Durio zibethinus 66656 CAG|GTCCTCCTCT...TAATCCTTTTCA/ATCCTTTTCACC...TATAG|GCA 0 1 1.435
67904679 GT-AG 0 0.0001114908044114 490 rna-XM_022893785.1 12758578 2 7220588 7221077 Durio zibethinus 66656 AAT|GTAAGTTTGG...GTTTGTTTAATT/ACTGTTTTCATT...CGCAG|GAT 0 1 4.036
67904680 GT-AG 0 1.000000099473604e-05 151 rna-XM_022893785.1 12758578 3 7220347 7220497 Durio zibethinus 66656 ACT|GTGAGATCTT...TCCTCTTTATTG/TTTTTTCTAAAT...ATCAG|GCT 0 1 6.726
67904681 GT-AG 0 1.000000099473604e-05 111 rna-XM_022893785.1 12758578 4 7220149 7220259 Durio zibethinus 66656 CTG|GTTAGTAATG...CTGTTTTTAATT/CTGTTTTTAATT...TGTAG|ATT 0 1 9.327
67904682 GT-AG 0 1.000000099473604e-05 407 rna-XM_022893785.1 12758578 5 7219622 7220028 Durio zibethinus 66656 GAT|GTAATACCAT...TTGTGTTTGACG/TAAGTGTTCATC...TTCAG|GAT 0 1 12.915
67904683 GT-AG 0 1.000000099473604e-05 103 rna-XM_022893785.1 12758578 6 7217422 7217524 Durio zibethinus 66656 CAG|GTAAGAATTG...CTTGTGTTGACT/CTTGTGTTGACT...TCTAG|GTT 0 1 75.605
67904684 GT-AG 0 0.0025037019941839 316 rna-XM_022893785.1 12758578 7 7216959 7217274 Durio zibethinus 66656 CAG|GTTACCTTCG...TTTCTCATAATG/TTGTTTCTCATA...CTCAG|TTC 0 1 80.0
67904685 GT-AG 0 0.000108621879827 333 rna-XM_022893785.1 12758578 8 7216117 7216449 Durio zibethinus 66656 CAG|GTGCATTTTC...TTGATCTTAATG/AATGTCCTTATA...TGCAG|CCG 2 1 95.217

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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]);