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 = 15733575

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Suggested facets: dinucleotide_pair, score, 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
84901738 GT-AG 0 0.6150217963022476 407 rna-XM_017748882.1 15733575 2 78825732 78826138 Gossypium arboreum 29729 AAG|GTTTCCCTTT...TAGTACTTAATT/TTTTATGTCATC...GTCAG|CTT 0 1 2.943
84901739 GT-AG 0 1.000000099473604e-05 134 rna-XM_017748882.1 15733575 3 78825003 78825136 Gossypium arboreum 29729 TAG|GTTGTGCTCT...ATGTATTTGATG/TAAGTTCTCATT...GGTAG|GTG 1 1 9.893
84901740 GT-AG 0 1.000000099473604e-05 304 rna-XM_017748882.1 15733575 4 78818859 78819162 Gossypium arboreum 29729 AAG|GTAATGTTTT...TGTTTCTTGGTT/GTTATTCTAATT...TTCAG|GTG 0 1 78.101
84901741 GT-AG 0 0.0013993135879604 97 rna-XM_017748882.1 15733575 5 78817897 78817993 Gossypium arboreum 29729 AAG|GTATGTGTAT...GGATCCTTATTT/GGGATCCTTATT...GACAG|AAA 1 1 88.204
84901742 GT-AG 0 1.000000099473604e-05 366 rna-XM_017748882.1 15733575 6 78816848 78817213 Gossypium arboreum 29729 GTG|GTAAGTTATT...AAATACTTATAT/AAAATACTTATA...TGTAG|ATA 0 1 96.181
84901743 GT-AG 0 0.0499540614925634 115 rna-XM_017748882.1 15733575 7 78816591 78816705 Gossypium arboreum 29729 AAG|GTACTCTTTA...CATCCTTTAGTT/TTAGTTCTTACA...TGCAG|TTC 1 1 97.839
84901744 GC-AG 0 1.000000099473604e-05 132 rna-XM_017748882.1 15733575 8 78816377 78816508 Gossypium arboreum 29729 ATG|GCAAGTGTTA...GCCCCTTTTATG/TTTTATGTAACC...GCCAG|GGT 2 1 98.797
84914331 GT-AG 0 0.0005346887432745 281 rna-XM_017748882.1 15733575 1 78826264 78826544 Gossypium arboreum 29729 CAG|GTATTTCAAT...GTTTCTTTGTTT/ACGTGGTTAATG...GGAAG|ATC   0 2.348

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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]);