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 = 5879258

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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
29939548 GT-AG 0 1.165428707248076e-05 684 rna-XM_014946444.1 5879258 1 170013 170696 Calidris pugnax 198806 CTT|GTGGGCACGG...TGGTTTTTAACT/TGGTTTTTAACT...AACAG|GGG 0 1 3.911
29939549 GT-AG 0 1.000000099473604e-05 1462 rna-XM_014946444.1 5879258 2 170827 172288 Calidris pugnax 198806 CAG|GTAAGATGGT...TCACCCTTGCTT/CACAGATTCACC...TGCAG|GCA 1 1 16.015
29939550 GT-AG 0 1.000000099473604e-05 479 rna-XM_014946444.1 5879258 3 172439 172917 Calidris pugnax 198806 AAG|GTAGGAGCTG...CTCCTCTTGCCC/CTGGGGTAGAGC...CACAG|ATG 1 1 29.981
29939551 GT-AG 0 1.000000099473604e-05 94 rna-XM_014946444.1 5879258 4 173033 173126 Calidris pugnax 198806 CCG|GTGAGTTGGG...CAGCCCCTGATC/CCCCTTCTTACT...TCCAG|GTG 2 1 40.689
29939552 GT-AG 0 0.0001622380555431 113 rna-XM_014946444.1 5879258 5 173219 173331 Calidris pugnax 198806 CCT|GTAAGTTGGG...CCCGTTTTATCC/CCCCGTTTTATC...TTTAG|ACA 1 1 49.255
29939553 GT-AG 0 1.000000099473604e-05 123 rna-XM_014946444.1 5879258 6 173425 173547 Calidris pugnax 198806 CAA|GTGAGCTTCT...CCATTTTTGTCT/AGAGCCATCACA...TCCAG|GGG 1 1 57.914
29939554 GT-AG 0 1.000000099473604e-05 361 rna-XM_014946444.1 5879258 7 173589 173949 Calidris pugnax 198806 GTG|GTGAGTTGCT...TTGTGCTTCTCT/CCTGGGGCCACC...TGCAG|GAC 0 1 61.732
29939555 GT-AG 0 0.0002261149192255 985 rna-XM_014946444.1 5879258 8 174068 175052 Calidris pugnax 198806 TCC|GTAAGTGTTG...TTTTCCTTCCCT/TGTTCTCTAAGC...TTTAG|TTC 1 1 72.719

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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]);