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 = 32191460

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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
179734598 GT-AG 0 1.000000099473604e-05 449 rna-XM_047140282.1 32191460 1 765092972 765093420 Schistocerca americana 7009 AAC|GTAAGTACAT...AACCCATTAATA/ATGTTTTTCATC...TTCAG|TCT 0 1 1.476
179734599 GT-AG 0 0.0110841150547804 24582 rna-XM_047140282.1 32191460 2 765093650 765118231 Schistocerca americana 7009 AAG|GTATGTTTCC...TTACTTTTATTT/TTTTATTTCATG...TACAG|CAT 1 1 6.376
179734600 GT-AG 0 0.0001512343851254 88 rna-XM_047140282.1 32191460 3 765118481 765118568 Schistocerca americana 7009 ATG|GTATGACTGC...TACTTCTTACCT/TTTTTTTTCATT...TGTAG|GAG 1 1 11.703
179734601 GT-AG 0 0.0004063951290886 92 rna-XM_047140282.1 32191460 4 765118692 765118783 Schistocerca americana 7009 CGA|GTAAGCTTAT...GTGTGTTTAGTG/ATGATATTCATT...TGCAG|CTC 1 1 14.335
179734602 GT-AG 0 1.000000099473604e-05 74 rna-XM_047140282.1 32191460 5 765118903 765118976 Schistocerca americana 7009 TTG|GTTGGTATAG...TTCCCCTTGCAT/TTGTTGTTTATA...TCAAG|GAA 0 1 16.881
179734603 GT-AG 0 1.2104082091771745e-05 45369 rna-XM_047140282.1 32191460 6 765119091 765164459 Schistocerca americana 7009 GAG|GTAAATAGTC...ACTTTCTTATTT/CACTTTCTTATT...TGCAG|CTA 0 1 19.32
179734604 GT-AG 0 1.000000099473604e-05 87 rna-XM_047140282.1 32191460 7 765164825 765164911 Schistocerca americana 7009 GAG|GTGAGATGTT...TTTTCTTTTTCT/CTGTGCTTCATT...TATAG|GAG 2 1 27.129
179734605 GT-AG 0 1.000000099473604e-05 20050 rna-XM_047140282.1 32191460 8 765168233 765188282 Schistocerca americana 7009 CAC|GTAAGTACCT...TTCTATTTATTC/AAATAATTCATT...TCCAG|AGC 2 1 98.181

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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]);