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 = 2014028

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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
10831772 GT-AG 0 2.38255144757456e-05 879 rna-XM_013174182.1 2014028 1 15167288 15168166 Anser cygnoides 8845 CTG|GTAAATACTT...AGAATCTTGACT/TTGTTTTTTAGA...TTAAG|CAG 1 1 45.083
10831773 GT-AG 0 0.0009647797640518 15524 rna-XM_013174182.1 2014028 2 15168370 15183893 Anser cygnoides 8845 ATA|GTATGTATTT...GCCATTTTCTTT/ACTGGAATAAAT...TGTAG|GAT 0 1 51.461
10831774 GT-AG 0 1.000000099473604e-05 3155 rna-XM_013174182.1 2014028 3 15183985 15187139 Anser cygnoides 8845 AAG|GTTAGTAAAG...AATTTTTTATTT/TTTATTTTTACT...TGTAG|AGG 1 1 54.32
10831775 GT-AG 0 1.000000099473604e-05 679 rna-XM_013174182.1 2014028 4 15187303 15187981 Anser cygnoides 8845 CAG|GTAAAGACTT...CATTTTTTTTTA/TATGTATACATT...ATCAG|GGG 2 1 59.441
10831776 GT-AG 0 0.0002067594752278 11749 rna-XM_013174182.1 2014028 5 15188178 15199926 Anser cygnoides 8845 CAG|GTAAGCTGTT...TTCTTCTTATTC/TTTCTTCTTATT...CTTAG|AAT 0 1 65.598
10831777 GT-AG 0 1.000000099473604e-05 2184 rna-XM_013174182.1 2014028 6 15200014 15202197 Anser cygnoides 8845 AAG|GTAAATTACA...AACTTCGTATTG/AAACTTCGTATT...TGCAG|ACA 0 1 68.332
10831778 GT-AG 0 1.8371698717989785e-05 1034 rna-XM_013174182.1 2014028 7 15202285 15203318 Anser cygnoides 8845 CTT|GTAAGTATAA...TCTTTCCTAGTT/TGTTTTCTAATA...TTAAG|GCC 0 1 71.065
10831779 GT-AG 0 1.000000099473604e-05 16476 rna-XM_013174182.1 2014028 8 15203418 15219893 Anser cygnoides 8845 TCT|GTGAGTAAAA...GCATTCTTCTCT/CTGTGCCTAATG...AACAG|CCT 0 1 74.175

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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]);