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 = 37928532

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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
209469196 GT-AG 0 0.0004123958470153 561 rna-XM_017562617.1 37928532 1 25382945 25383505 Vigna angularis 3914 CTG|GTATGTATAA...TGTTCTTTCATC/TGTTCTTTCATC...GGCAG|GAC 2 1 9.178
209469197 GT-AG 0 2.2284659498854225e-05 81 rna-XM_017562617.1 37928532 4 25377891 25377971 Vigna angularis 3914 TCA|GTAAGTATTC...GAATTTATAATA/ATAAATTTCACT...GGCAG|GAT 0 1 87.911
209469198 GT-AG 0 0.0004813324836331 105 rna-XM_017562617.1 37928532 5 25377710 25377814 Vigna angularis 3914 GTG|GTATGTGATG...TTGTCCTTTGCT/ATAATCCTGACC...TGAAG|CTT 1 1 89.613
209469199 GT-AG 0 0.0001382640254495 84 rna-XM_017562617.1 37928532 6 25377531 25377614 Vigna angularis 3914 GCA|GTAAGTTCTT...TTGTACTTATAA/ATTGTACTTATA...GTAAG|GCA 0 1 91.739
209469200 GT-AG 0 1.644513422763454e-05 90 rna-XM_017562617.1 37928532 7 25377375 25377464 Vigna angularis 3914 AAT|GTGAGCTTAT...ATTTTGTTGATT/ATTTTGTTGATT...TGCAG|AGA 0 1 93.217
209469201 GT-AG 0 0.0121635724549006 206 rna-XM_017562617.1 37928532 8 25377079 25377284 Vigna angularis 3914 TAT|GTAGGTTTTT...TCGTTCTTATCT/AGTTTTTTCACA...GTCAG|ATT 0 1 95.232
209469202 GT-AG 0 0.0012564739580167 445 rna-XM_017562617.1 37928532 9 25376457 25376901 Vigna angularis 3914 AAG|GTATTTCATG...TTTTCCTTTTCT/CTGATTTTTACT...TCCAG|GAA 0 1 99.194

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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]);