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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)

9 rows where transcript_id = 26266774

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id ▼ dinucleotide_pair is_minor score length transcript_id ordinal_index start end taxonomy_id scored_motifs phase in_cds relative_position
145335857 GT-AG 0 6.470716158796003e-05 40 rna-gnl|WGS:JTDE|EG68_00077 26266774 1 328382 328421 Paragonimus skrjabini miyazakii 59628 TCA|GTAGGTTACT...TTCATTTCATTT/GTTCATTTCATT...TCGAG|GAG 2 1 0.995
145335858 GT-AG 0 1.000000099473604e-05 37 rna-gnl|WGS:JTDE|EG68_00077 26266774 2 328567 328603 Paragonimus skrjabini miyazakii 59628 GAG|GTAAATATTC...GGTTTGTCAGCC/CGGTTTGTCAGC...TTCAG|GAT 0 1 11.301
145335859 GT-AG 0 6.900984529971296e-05 1225 rna-gnl|WGS:JTDE|EG68_00077 26266774 3 328728 329952 Paragonimus skrjabini miyazakii 59628 ACG|GTAATCTAAG...TTTATTCTAATT/TTTATTCTAATT...TACAG|AGT 1 1 20.114
145335860 GT-AG 0 0.0002114559883853 18375 rna-gnl|WGS:JTDE|EG68_00077 26266774 4 330136 348510 Paragonimus skrjabini miyazakii 59628 TCG|GTATGTAACG...TGCAGTTTAGCT/GCTTTTGTCATT...TTCAG|ATG 1 1 33.12
145335861 GT-AG 0 1.000000099473604e-05 2304 rna-gnl|WGS:JTDE|EG68_00077 26266774 5 348798 351101 Paragonimus skrjabini miyazakii 59628 AAG|GTGCGTTTGG...CTTTCTTCGATT/GCGTTGCTGATT...TTCAG|TTT 0 1 53.518
145335862 GT-AG 0 0.0010249823462769 3590 rna-gnl|WGS:JTDE|EG68_00077 26266774 6 351172 354761 Paragonimus skrjabini miyazakii 59628 TAA|GTAAGTTTTC...ATTGTTTTAATT/ATTGTTTTAATT...TACAG|AAC 1 1 58.493
145335863 GT-AG 0 1.000000099473604e-05 593 rna-gnl|WGS:JTDE|EG68_00077 26266774 7 354837 355429 Paragonimus skrjabini miyazakii 59628 CCG|GTAAGTGTGA...TTCTTTTTATTT/CTTCTTTTTATT...TACAG|ATC 1 1 63.824
145335864 GT-AG 0 1.000000099473604e-05 3633 rna-gnl|WGS:JTDE|EG68_00077 26266774 8 355494 359126 Paragonimus skrjabini miyazakii 59628 TAG|GTAAGGTTCC...TATGTCCTAACA/TATGTCCTAACA...TATAG|ACT 2 1 68.372
145335865 GT-AG 0 0.000172037977879 1433 rna-gnl|WGS:JTDE|EG68_00077 26266774 9 359394 360826 Paragonimus skrjabini miyazakii 59628 AGC|GTACGTCAAA...TACTTCTCGACA/TCTGATTTCACT...CACAG|ATT 2 1 87.349

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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]);
Powered by Datasette · Queries took 24.483ms · Data license: ODbL · Data source: Larue & Roy, 2023 · About: Minor Intron Database (WtMTA)