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 = 10944913

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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
60662182 GT-AG 0 0.0001696415705231 5840 rna-XM_020817074.2 10944913 1 1803451 1809290 Dendrobium catenatum 906689 GAG|GTTTGATTTT...CTTTTTTTAAAT/CTTTTTTTAAAT...ATCAG|AGA 0 1 30.288
60662183 GT-AG 0 1.000000099473604e-05 78 rna-XM_020817074.2 10944913 2 1802832 1802909 Dendrobium catenatum 906689 TCG|GTAAGTATAC...CTCTCTTTACAG/ATAGGCCTCATA...AATAG|GCA 1 1 49.748
60662184 GT-AG 0 1.000000099473604e-05 1155 rna-XM_020817074.2 10944913 3 1801546 1802700 Dendrobium catenatum 906689 AAG|GTAAAATATT...TTGTTATTAATG/TTGTTATTAATG...TGCAG|AGC 0 1 54.46
60662185 GT-AG 0 1.000000099473604e-05 2323 rna-XM_020817074.2 10944913 4 1798863 1801185 Dendrobium catenatum 906689 CTT|GTAAGAATCT...TATTTTTTAGAG/AAGATGTTTATT...TACAG|GCT 0 1 67.41
60662186 GT-AG 0 0.0023495737391632 690 rna-XM_020817074.2 10944913 5 1798016 1798705 Dendrobium catenatum 906689 TTG|GTAACTCTAG...TTGTCCTTATGA/TTTGTCCTTATG...TTCAG|GAA 1 1 73.058
60662187 GT-AG 0 1.000000099473604e-05 154 rna-XM_020817074.2 10944913 6 1797569 1797722 Dendrobium catenatum 906689 GAG|GTAAAATTTC...CAATTCTTGTCT/ATACTTTTCAAT...ATTAG|GCT 0 1 83.597
60662188 GT-AG 0 4.176084791111166e-05 183 rna-XM_020817074.2 10944913 7 1797326 1797508 Dendrobium catenatum 906689 TTG|GTATGTGCCA...CATTTTTTTTCT/TATGTTCTCACT...CAAAG|GAT 0 1 85.755
60662189 GT-AG 0 1.000000099473604e-05 1388 rna-XM_020817074.2 10944913 8 1795848 1797235 Dendrobium catenatum 906689 GAG|GTAAATATAT...CCATTCTTACAT/ATTTTGTTTATT...CGTAG|GAT 0 1 88.993

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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]);