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)

7 rows where transcript_id = 29402355

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Suggested facets: dinucleotide_pair, score, length, phase, in_cds

id ▼ dinucleotide_pair is_minor score length transcript_id ordinal_index start end taxonomy_id scored_motifs phase in_cds relative_position
163707292 GT-AG 0 0.0250011723940579 99 rna-XM_020557322.1 29402355 2 35474801 35474899 Prunus persica 3760 GAG|GTATGCTTAA...GTTTCATTACTG/AGTTTCATTACT...TGTAG|CTT 0 1 21.218
163707293 GT-AG 0 0.0001547081022864 99 rna-XM_020557322.1 29402355 3 35474254 35474352 Prunus persica 3760 TTG|GTAATGTTCC...TTTTCTTTAATA/TTTTCTTTAATA...GACAG|CAA 1 1 29.585
163707294 GT-AG 0 1.000000099473604e-05 471 rna-XM_020557322.1 29402355 4 35473712 35474182 Prunus persica 3760 CAG|GTTAGTCCTC...TTTACCCTATTT/ATCAAATTTACC...AACAG|GCA 0 1 30.911
163707295 GT-AG 0 0.00011062522116 590 rna-XM_020557322.1 29402355 5 35472997 35473586 Prunus persica 3760 GAG|GTTTGTTGTC...TTCTTCTTGTCT/TGATAACTTATT...CACAG|GAA 2 1 33.246
163707296 AC-AG 0 1.000000099473604e-05 360 rna-XM_020557322.1 29402355 6 35472338 35472697 Prunus persica 3760 TAT|ACTGAGCCAG...TGTACCTTAAAT/CCTTTTTTGATT...CTCAG|ATG 1 1 38.831
163707297 GT-CT 0 0.0325488489929592 366 rna-XM_020557322.1 29402355 7 35471901 35472266 Prunus persica 3760 GAT|GTAACTTCAT...GCCTCCTAAAAT/TGCCTCCTAAAA...AAACT|CAC 0 1 40.157
163729426 GT-AG 0 0.000184264595473 853 rna-XM_020557322.1 29402355 1 35475748 35476600 Prunus persica 3760 AAG|GTACACCCTT...CACTCCATGAAC/AATGGACTAATC...CGCAG|GGT   0 6.817

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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]);