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 = 15063286

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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
81344866 GT-AG 0 1.000000099473604e-05 255 rna-XM_040177668.1 15063286 2 24503083 24503337 Gasterosteus aculeatus 69293 AAG|GTTAGTGGGA...ATCTTCTGAACT/AATCTTCTGAAC...TACAG|GTG 0 1 6.009
81344867 GT-AG 0 1.000000099473604e-05 99 rna-XM_040177668.1 15063286 3 24503731 24503829 Gasterosteus aculeatus 69293 AGG|GTAAGAATTT...CCCATTTTAGTG/ACCCATTTTAGT...TCCAG|ATT 0 1 11.065
81344868 GT-AG 0 5.754489395711784e-05 119 rna-XM_040177668.1 15063286 4 24504068 24504186 Gasterosteus aculeatus 69293 ATG|GTAAGTTTGT...AGTGCATTAACA/AGTGCATTAACA...TTCAG|TAA 1 1 14.128
81344869 GT-AG 0 1.000000099473604e-05 176 rna-XM_040177668.1 15063286 5 24508596 24508771 Gasterosteus aculeatus 69293 GAG|GTAAGCCAAT...ATTGCCAAAATG/ATAATATTCATT...CGTAG|GTG 0 1 70.857
81344870 GT-AG 0 4.321539792854996e-05 85 rna-XM_040177668.1 15063286 6 24509636 24509720 Gasterosteus aculeatus 69293 AAG|GTAACTACAC...TAACATTTGATG/TAACATTTGATG...TTCAG|GTC 0 1 81.974
81344871 GT-AG 0 1.000000099473604e-05 848 rna-XM_040177668.1 15063286 7 24510786 24511633 Gasterosteus aculeatus 69293 CAG|GTAGGATGAA...GTAGCCATAATA/CAGCAGCTCACA...CTCAG|GGC 0 1 95.677
81357191 GT-AG 0 0.000142276822344 2853 rna-XM_040177668.1 15063286 1 24499989 24502841 Gasterosteus aculeatus 69293 TCG|GTATGTGTAT...GACTCCTCCACG/ACAAAAGTCAAC...TTCAG|GTG   0 3.152

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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]);