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 = 37986767

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Suggested facets: dinucleotide_pair, score, phase

id ▼ dinucleotide_pair is_minor score length transcript_id ordinal_index start end taxonomy_id scored_motifs phase in_cds relative_position
209727072 GT-AG 0 0.00035788487809 82 rna-XM_047301726.1 37986767 1 11395 11476 Vigna umbellata 87088 AAA|GTAAGTTCAA...TTATCCTTATTT/TTTATCCTTATT...AGCAG|TTG 2 1 1.383
209727073 GT-AG 0 1.000000099473604e-05 1434 rna-XM_047301726.1 37986767 2 9883 11316 Vigna umbellata 87088 AGG|GTGCTGGAAT...TTTATTTTAATT/TTTATTTTAATT...CATAG|AAG 2 1 6.777
209727074 GT-AG 0 1.7332524011490164e-05 249 rna-XM_047301726.1 37986767 3 9317 9565 Vigna umbellata 87088 CAG|GTTATCTTTG...AATGCTTTATAA/TTATAATTTATT...TGCAG|GTG 1 1 28.7
209727075 GC-AG 0 1.000000099473604e-05 7640 rna-XM_047301726.1 37986767 4 1402 9041 Vigna umbellata 87088 GAG|GCAAGTTCCA...AGTTGCTGAGCT/CAGTTGCTGAGC...GACAG|GTA 0 1 47.718
209727076 GT-AG 0 0.000392784771349 108 rna-XM_047301726.1 37986767 5 1216 1323 Vigna umbellata 87088 GTC|GTAAGTTACT...TAGCTCTTATTT/ATAGCTCTTATT...GGTAG|GTT 0 1 53.112
209727077 GT-AG 0 0.0010896136566568 431 rna-XM_047301726.1 37986767 6 542 972 Vigna umbellata 87088 ATG|GTAAACTTTT...ATTTTGTTACTA/GATTTTGTTACT...TTCAG|CCA 0 1 69.917
209727078 GT-AG 0 1.000000099473604e-05 102 rna-XM_047301726.1 37986767 7 299 400 Vigna umbellata 87088 CGG|GTAAAACATT...AATGTTATAATT/TTATAATTGACA...TGCAG|GGT 0 1 79.668

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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]);