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 = 24462935

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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
133658366 GT-AG 0 1.000000099473604e-05 7526 rna-XM_004391602.2 24462935 2 194613 202138 Odobenus rosmarus 9707 CTT|GTAAGTAATC...ATTTGCTTGTCT/TGTGAATTAATA...TCTAG|CTG 0 1 74.416
133658367 GT-AG 0 0.0002541646233623 12031 rna-XM_004391602.2 24462935 3 202296 214326 Odobenus rosmarus 9707 TAG|GTTCTCTTAA...TCTGTCTTGTCG/TATTTATTCACA...TTAAG|ATA 1 1 78.536
133658368 GT-AG 0 9.184189372869195e-05 1648 rna-XM_004391602.2 24462935 4 214464 216111 Odobenus rosmarus 9707 AAG|GTATGGGTTT...ACACCCTTATAC/AACACCCTTATA...AACAG|CAA 0 1 82.131
133658369 GT-AG 0 0.0140121929672595 6516 rna-XM_004391602.2 24462935 5 216261 222776 Odobenus rosmarus 9707 CAG|GTACCCCACC...TATTGTTTGAAG/TATTGTTTGAAG...TTCAG|GTT 2 1 86.04
133658370 GT-AG 0 1.000000099473604e-05 2373 rna-XM_004391602.2 24462935 6 222881 225253 Odobenus rosmarus 9707 TTG|GTGAGTGGGA...GTTTTCTTTTTT/AGATGATTTATC...TTCAG|GTC 1 1 88.769
133658371 GT-AG 0 1.000000099473604e-05 1025 rna-XM_004391602.2 24462935 7 225335 226359 Odobenus rosmarus 9707 ATG|GTAAAGTGCT...AATCCCCTAACA/ACTTTTCTAACC...TCTAG|GGA 1 1 90.895
133658768 GT-AG 0 2.656525830034507e-05 436 rna-XM_004391602.2 24462935 1 192270 192705 Odobenus rosmarus 9707 AAT|GTAAGTGTGT...TGTCTTTTGACC/TGTCTTTTGACC...CAAAG|TGG   0 24.665

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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]);