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 = 14452945

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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
77225712 GT-AG 0 3.567053770206058e-05 404 rna-XM_028658536.1 14452945 1 1501211 1501614 Exaiptasia diaphana 2652724 AGT|GTAAGTCTAG...AATATATTAACT/AATATATTAACT...TTCAG|ATT 0 1 12.162
77225713 GT-AG 0 0.0001222310185515 646 rna-XM_028658536.1 14452945 2 1500501 1501146 Exaiptasia diaphana 2652724 ATG|GTAATTATTG...ATTACTTTAGCA/GTATGTTTGATA...TGAAG|ATG 1 1 17.568
77225714 GT-AG 0 1.000000099473604e-05 428 rna-XM_028658536.1 14452945 3 1499954 1500381 Exaiptasia diaphana 2652724 GTG|GTCATTGAGT...TGCTTCATGATA/GTATGCTTCATG...CACAG|ATG 0 1 27.618
77225715 GT-AG 0 1.000000099473604e-05 683 rna-XM_028658536.1 14452945 4 1499154 1499836 Exaiptasia diaphana 2652724 TCA|GTAAGTGCCA...AAATTATTAAAG/TGTAATCTCATC...CTAAG|AGT 0 1 37.5
77225716 GT-AG 0 0.0062927705353371 454 rna-XM_028658536.1 14452945 6 1497732 1498185 Exaiptasia diaphana 2652724 GAA|GTATGTTACA...TTGCCTATAATT/ATTCAATTGATT...TGTAG|GGA 0 1 50.169
77225717 GT-AG 0 0.0157095612177338 720 rna-XM_028658536.1 14452945 7 1496904 1497623 Exaiptasia diaphana 2652724 GAA|GTATGTTACA...CTATTATTAATA/CTATTATTAATA...CTTAG|ATT 0 1 59.291
77225836 GT-AG 0 1.000000099473604e-05 2499 rna-XM_028658536.1 14452945 8 1494327 1496825 Exaiptasia diaphana 2652724 AAG|GTAAAAAAAT...TTTACTTTAGTG/CTGGTTTTCATG...TGCAG|TAT   0 65.878

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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]);