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 = 29501553

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Suggested facets: dinucleotide_pair, score, phase

id ▼ dinucleotide_pair is_minor score length transcript_id ordinal_index start end taxonomy_id scored_motifs phase in_cds relative_position
164360209 GC-AG 0 0.0003676668555347 55527 rna-XM_014254577.1 29501553 1 32226041 32281567 Pseudopodoces humilis 181119 CGA|GCACTTTTAC...TAATTTTTATAT/GTAATTTTTATA...TCTAG|GTA 2 1 81.96
164360210 GT-AG 0 1.000000099473604e-05 57369 rna-XM_014254577.1 29501553 2 32168653 32226021 Pseudopodoces humilis 181119 GAA|GTCAGAGTGT...TTCACCTTCCTC/TAATGCTTCACC...TTTAG|GTC 0 1 82.472
164360211 GT-AG 0 1.000000099473604e-05 2983 rna-XM_014254577.1 29501553 3 32165643 32168625 Pseudopodoces humilis 181119 CCT|GTTTGAGGTT...TTAACTTCAGTG/CTTTGTGTGACA...CTTAG|GGG 0 1 83.199
164360212 GT-AG 0 1.000000099473604e-05 213966 rna-XM_014254577.1 29501553 4 31951667 32165632 Pseudopodoces humilis 181119 CAT|GTTAAAAAAA...ATCACATTAACA/AATTGCTTCAGT...AAAAG|CTT 1 1 83.468
164360213 GT-AG 0 1.000000099473604e-05 22469 rna-XM_014254577.1 29501553 5 31929167 31951635 Pseudopodoces humilis 181119 CAA|GTCAATGATG...AAAGCTTGAGTT/GAGTTGCTAATA...CAAAG|CAC 2 1 84.303
164360214 GT-AG 0 1.000000099473604e-05 80534 rna-XM_014254577.1 29501553 6 31848626 31929159 Pseudopodoces humilis 181119 GAA|GTGAGCAGCA...GTGTCCTGTGCT/AGAGCACTAATC...TGTAG|TCC 0 1 84.491
164360215 GT-AG 0 1.000000099473604e-05 234470 rna-XM_014254577.1 29501553 7 31613954 31848423 Pseudopodoces humilis 181119 CGG|GTGAGTCACC...TTTTCTTTCTCT/TTTTTTCTTTCT...TACAG|ATG 1 1 89.93

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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]);