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 = 24462879

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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
133657886 GT-AG 0 1.000000099473604e-05 1803 rna-XM_004391586.1 24462879 1 17498106 17499908 Odobenus rosmarus 9707 AGG|GTGAGTAAGG...AGAATTTTGATT/AGAATTTTGATT...CCTAG|CCA 2 1 16.527
133657887 GT-AG 0 1.000000099473604e-05 9406 rna-XM_004391586.1 24462879 2 17499966 17509371 Odobenus rosmarus 9707 ATG|GTAAAACTTT...TTGTTTTTAGCA/AGTTTATTTATT...TACAG|GAA 2 1 20.518
133657888 GT-AG 0 1.000000099473604e-05 566 rna-XM_004391586.1 24462879 3 17509541 17510106 Odobenus rosmarus 9707 AAG|GTAGTGTGTT...ACATACTTAAAA/CTGAACTTCAAT...TTTAG|GTC 0 1 32.353
133657889 GT-AG 0 3.725252366550692e-05 1281 rna-XM_004391586.1 24462879 4 17510269 17511549 Odobenus rosmarus 9707 GAG|GTATGTGATG...TAAAACTTATTT/TTAAAACTTATT...ATCAG|GTG 0 1 43.697
133657890 GT-AG 0 1.427820017359984e-05 436 rna-XM_004391586.1 24462879 5 17511682 17512117 Odobenus rosmarus 9707 AAA|GTAAGTTAAG...CAAATTTTGATA/CAAATTTTGATA...TTTAG|TGT 0 1 52.941
133657891 GT-AG 0 6.205751583478312e-05 112 rna-XM_004391586.1 24462879 6 17512218 17512329 Odobenus rosmarus 9707 GTG|GTAAGCTAGA...CTGACTTTAGTG/TCTTTGCTGATC...TGCAG|GCC 1 1 59.944
133657892 GT-AG 0 1.3217001785757586e-05 1092 rna-XM_004391586.1 24462879 7 17512477 17513568 Odobenus rosmarus 9707 GCA|GTAAGTACTA...TGATTATTAGTA/CTAGTTCTAACA...TTTAG|ACC 1 1 70.238
133658036 GT-AG 0 0.0025151554059632 1179 rna-XM_004391586.1 24462879 8 17513667 17514845 Odobenus rosmarus 9707 CAG|GTATGTTCTA...TTTTTCTTTGTC/CCCAGAATGACT...TCCAG|GTG   0 77.101

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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]);