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)

10 rows where transcript_id = 22631614

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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
122792148 GT-AG 0 1.000000099473604e-05 93 rna-XM_009384817.2 22631614 1 4323326 4323418 Musa acuminata 4641 AAG|GTAATAATTA...ATTTTTGTGATT/TTGTGATTGATT...TTAAG|GTG 0 1 64.405
122792149 GT-AG 0 1.000000099473604e-05 95 rna-XM_009384817.2 22631614 2 4323527 4323621 Musa acuminata 4641 CAG|GTCAATACAT...TTTGTTTTAAAA/TAAAATCTAATT...AACAG|ATC 0 1 67.149
122792150 GT-AG 0 1.000000099473604e-05 111 rna-XM_009384817.2 22631614 3 4323723 4323833 Musa acuminata 4641 CAG|GTAATATCTA...TGATACTTAAAA/ATTTGCCTAATG...ATTAG|TGG 2 1 69.715
122792151 GT-AG 0 6.681797744407789e-05 294 rna-XM_009384817.2 22631614 4 4323925 4324218 Musa acuminata 4641 CAG|GTTTGTTTCC...ATTAACTTATTC/AATTAACTTATT...TTCAG|TGT 0 1 72.027
122792152 GT-AG 0 0.0003476425664511 71 rna-XM_009384817.2 22631614 5 4324330 4324400 Musa acuminata 4641 CAG|GTATAGATGT...TATTTCTTATCT/TTATTTCTTATC...TGCAG|GGG 0 1 74.848
122792153 GT-AG 0 1.000000099473604e-05 4741 rna-XM_009384817.2 22631614 6 4324467 4329207 Musa acuminata 4641 AAG|GTGAGTACAT...TTTCTATTGATT/TTTCTATTGATT...CTCAG|GGT 0 1 76.524
122792154 GT-AG 0 0.0007771249530917 80 rna-XM_009384817.2 22631614 7 4329268 4329347 Musa acuminata 4641 CAG|GTACATTTGG...CACTTTTTATTT/CTTCATCTCATC...AACAG|GGC 0 1 78.049
122792155 GT-AG 0 1.5988589477437105e-05 814 rna-XM_009384817.2 22631614 8 4329906 4330719 Musa acuminata 4641 AAG|GTAATTTCAT...ATAGCTTTACCC/TGTTTGCTTATA...TTCAG|ATT 0 1 92.226
122792156 GT-AG 0 0.004890292303568 92 rna-XM_009384817.2 22631614 9 4330840 4330931 Musa acuminata 4641 AAG|GTATCAAGGA...ATCTTCTGAGCC/CTGAGCCTCATC...TACAG|ATA 0 1 95.274
122792157 GT-AG 0 1.000000099473604e-05 232 rna-XM_009384817.2 22631614 10 4331052 4331283 Musa acuminata 4641 AGG|GTAAGAATGA...TTTACTTCAATT/AAATTACTAATT...TGTAG|GAT 0 1 98.323

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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]);