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 = 4024566

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Suggested facets: score, phase

id ▼ dinucleotide_pair is_minor score length transcript_id ordinal_index start end taxonomy_id scored_motifs phase in_cds relative_position
20805369 GT-AG 0 1.000000099473604e-05 2272 rna-XM_010304377.1 4024566 1 77820 80091 Balearica regulorum 925459 TTG|GTAAGTGCTG...TAACCTTTATTT/ATAACCTTTATT...AACAG|AGC 1 1 56.752
20805370 GT-AG 0 1.000000099473604e-05 3447 rna-XM_010304377.1 4024566 2 74282 77728 Balearica regulorum 925459 AAG|GTAATTAGTG...ATATGCTTATTG/AATATGCTTATT...TTAAG|ATT 2 1 58.299
20805371 GT-AG 0 1.000000099473604e-05 1142 rna-XM_010304377.1 4024566 3 73046 74187 Balearica regulorum 925459 TGG|GTAAGTGATG...TGTGTGTTACTG/GTGTGTGTTACT...TGCAG|GTA 0 1 59.898
20805372 GT-AG 0 1.7628425385093044e-05 809 rna-XM_010304377.1 4024566 4 72028 72836 Balearica regulorum 925459 AGA|GTAAGTAGAA...ATTCTCTTATTT/TATTCTCTTATT...TTTAG|ACG 2 1 63.452
20805373 GT-AG 0 1.000000099473604e-05 2161 rna-XM_010304377.1 4024566 5 69716 71876 Balearica regulorum 925459 GAG|GTTGGTGTCC...ATGTCATTGAAC/CTCTATTTCATC...AACAG|GAA 0 1 66.02
20805374 GT-AG 0 0.000640848555318 2572 rna-XM_010304377.1 4024566 6 67054 69625 Balearica regulorum 925459 CAG|GTATGCTGGG...ATACCTGTCATC/ATACCTGTCATC...TCCAG|ATC 0 1 67.551
20805375 GT-AG 0 1.000000099473604e-05 1437 rna-XM_010304377.1 4024566 7 65479 66915 Balearica regulorum 925459 CTG|GTAAGTCTGT...GTTACTCTAACA/GTTACTCTAACA...AACAG|GTT 0 1 69.898
20805376 GT-AG 0 1.000000099473604e-05 1302 rna-XM_010304377.1 4024566 8 63816 65117 Balearica regulorum 925459 CAG|GTAAACACAT...TTTTTCTTCTTT/CTTCTTTTCACA...TACAG|ATC 1 1 76.037

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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]);