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 = 21325440

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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
114869901 GT-AG 0 1.000000099473604e-05 5919 rna-XM_025338301.1 21325440 1 937639 943557 Melanaphis sacchari 742174 AAG|GTAAGACCGA...TTTGTCTTATAT/TTTTTTTTCACA...TTCAG|AAG 1 1 6.268
114869902 GT-AG 0 0.0001632013294744 1359 rna-XM_025338301.1 21325440 2 943728 945086 Melanaphis sacchari 742174 GAA|GTAATTTTAA...TTATTCTAATTA/GTTATTCTAATT...TTTAG|CAT 0 1 11.248
114869903 GT-AG 0 4.778567286047318e-05 11859 rna-XM_025338301.1 21325440 3 945276 957134 Melanaphis sacchari 742174 AAG|GTTTGTTAAT...TATTTTTTATTT/ATATTTTTTATT...TATAG|GCC 0 1 16.784
114869904 GT-AG 0 2.173508346094993e-05 443 rna-XM_025338301.1 21325440 4 957354 957796 Melanaphis sacchari 742174 GAG|GTAAATATTT...AATATTTTAACT/AATATTTTAACT...TGTAG|GTA 0 1 23.199
114869905 GT-AG 0 1.000000099473604e-05 73 rna-XM_025338301.1 21325440 5 958139 958211 Melanaphis sacchari 742174 AAA|GTTCGTATAA...TACTTTTTACAA/AATATATTTACT...TGTAG|GTA 0 1 33.216
114869906 GT-AG 0 1.000000099473604e-05 2699 rna-XM_025338301.1 21325440 6 958617 961315 Melanaphis sacchari 742174 CAG|GTGAGATATC...ATCATTTTATTT/TTATTTTTCAAA...TGCAG|ACT 0 1 45.079
114869907 GT-AG 0 1.000000099473604e-05 3612 rna-XM_025338301.1 21325440 7 962203 965814 Melanaphis sacchari 742174 GAG|GTAATATTAT...AATATATTATTA/AATAGATTAAAT...TGCAG|GAC 2 1 71.06
114869908 GT-AG 0 2.444031783649898e-05 493 rna-XM_025338301.1 21325440 8 965966 966458 Melanaphis sacchari 742174 CAG|GTAAACTAAA...GTCTCGTTACTA/TACGGTGTCACA...CGCAG|GTG 0 1 75.483

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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]);