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)

6 rows where transcript_id = 17285696

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Suggested facets: dinucleotide_pair, score, length, phase

id ▼ dinucleotide_pair is_minor score length transcript_id ordinal_index start end taxonomy_id scored_motifs phase in_cds relative_position
92354335 GT-AG 0 1.0787584179477856e-05 44 rna-gnl|WGS:MCGT|DM01DRAFT_mRNA1331098 17285696 1 1259420 1259463 Hesseltinella vesiculosa 101127 ACT|GTAAGATCTC...TTTTCCTTTCTC/TCCTTTCTCACT...CATAG|GTG 1 1 19.777
92354336 GT-AG 0 1.000000099473604e-05 63 rna-gnl|WGS:MCGT|DM01DRAFT_mRNA1331098 17285696 2 1259121 1259183 Hesseltinella vesiculosa 101127 TTG|GTAAGTGTCT...TTTTTCTCAATC/CTTTTTCTCAAT...TTTAG|ATT 0 1 27.505
92354337 TA-AG 0 1.000000099473604e-05 165 rna-gnl|WGS:MCGT|DM01DRAFT_mRNA1331098 17285696 3 1258786 1258950 Hesseltinella vesiculosa 101127 CTG|TAAGTCCCAT...TCTCTTTTGCAA/TGAGAACTCACT...TTTAG|GGG 2 1 33.071
92354338 GT-AG 0 1.000000099473604e-05 58 rna-gnl|WGS:MCGT|DM01DRAFT_mRNA1331098 17285696 4 1257553 1257610 Hesseltinella vesiculosa 101127 AAG|GTAAGCAAAC...TTTTTTTTTTTT/CGCAAACTGATC...TTTAG|CTC 1 1 71.546
92354339 GT-AG 0 0.0002737404294048 74 rna-gnl|WGS:MCGT|DM01DRAFT_mRNA1331098 17285696 5 1257455 1257528 Hesseltinella vesiculosa 101127 ACA|GTAAGCGACC...TAAACCTTGATG/CGATCTCTAAAC...TATAG|CTG 1 1 72.331
92354340 GT-AG 0 0.0001027560701357 63 rna-gnl|WGS:MCGT|DM01DRAFT_mRNA1331098 17285696 6 1257280 1257342 Hesseltinella vesiculosa 101127 ACA|GTAAGCCCAC...TGGACCCTGACT/TGGACCCTGACT...TATAG|CTC 2 1 75.999

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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]);