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)

6 rows where transcript_id = 26383252

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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
146243977 GT-AG 0 8.264293864530826e-05 99 rna-gnl|WGS:JXTB|PanWU01x14_000560.1 26383252 1 695389 695487 Parasponia andersonii 3476 CGC|GTAAGTACCA...CTATCCTTATTC/TCTATCCTTATT...TGTAG|AGA 1 1 33.28
146243978 GT-AG 0 0.0581111939846899 78 rna-gnl|WGS:JXTB|PanWU01x14_000560.1 26383252 2 695644 695721 Parasponia andersonii 3476 ATT|GTTTTTTTGA...AACTTTTTAATG/TTTTTAATGATT...ATCAG|GTG 1 1 41.627
146243979 GT-AG 0 1.000000099473604e-05 95 rna-gnl|WGS:JXTB|PanWU01x14_000560.1 26383252 3 695913 696007 Parasponia andersonii 3476 AAG|GTAATACTGA...AAGTTTGTGATT/TTTATGTTTACG...TTCAG|GGT 0 1 51.846
146243980 GT-AG 0 1.6176852232315377e-05 124 rna-gnl|WGS:JXTB|PanWU01x14_000560.1 26383252 4 696219 696342 Parasponia andersonii 3476 TTG|GTAATTATTA...TTAATCTTTCCA/AAATGGTTAATC...GGTAG|ACC 1 1 63.135
146243981 GT-AG 0 0.0001935406941353 129 rna-gnl|WGS:JXTB|PanWU01x14_000560.1 26383252 5 696581 696709 Parasponia andersonii 3476 ATA|GTAAGTTCTT...TATCCTATAATT/CTATAATTCACT...CTCAG|TGG 2 1 75.869
146243982 GT-AG 0 1.000000099473604e-05 93 rna-gnl|WGS:JXTB|PanWU01x14_000560.1 26383252 6 696861 696953 Parasponia andersonii 3476 TAT|GTGAGTGTTG...CTATCTGTGACG/CTATCTGTGACG...TGCAG|GCG 0 1 83.949

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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]);