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)

9 rows where transcript_id = 2121776

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Suggested facets: 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
11620947 GT-AG 0 0.0411997300353512 47 rna-XM_009822970.1 2121776 1 955293 955339 Aphanomyces astaci 112090 TGC|GTACGTTTTT...GTGTCCATGACA/GTGTCCATGACA...CATAG|GAC 2 1 4.55
11620948 GT-AG 0 1.000000099473604e-05 48 rna-XM_009822970.1 2121776 2 955560 955607 Aphanomyces astaci 112090 GAA|GTACGTGCAT...CGTTCCTGCATG/ATGTTCGTCACC...TCTAG|AAT 0 1 9.142
11620949 GT-AG 0 1.000000099473604e-05 432 rna-XM_009822970.1 2121776 3 956685 957116 Aphanomyces astaci 112090 CAG|GTTCGTCATG...TTCGTGTTGATA/TTCGTGTTGATA...TGTAG|GTG 0 1 31.622
11620950 GT-AG 0 1.000000099473604e-05 61 rna-XM_009822970.1 2121776 4 957599 957659 Aphanomyces astaci 112090 TTG|GTACAAGACT...TATATATTATAT/ATATATATTATA...GATAG|CTT 2 1 41.682
11620951 GT-AG 0 5.72071294528525e-05 86 rna-XM_009822970.1 2121776 5 958807 958892 Aphanomyces astaci 112090 CAA|GTACGTACGA...CGTTCATTATCA/ATATCGTTCATT...CCTAG|TTT 0 1 65.623
11620952 GT-AG 0 1.000000099473604e-05 48 rna-XM_009822970.1 2121776 6 959283 959330 Aphanomyces astaci 112090 TCG|GTACAACAGT...TTGTGCTTGATG/TTGTGCTTGATG...GGTAG|GAG 0 1 73.763
11620953 GT-AG 0 1.881220126080325e-05 74 rna-XM_009822970.1 2121776 7 959562 959635 Aphanomyces astaci 112090 TTG|GTATTACGAT...TGTTTCATATAT/GGTTGTTTCATA...TCTAG|GAA 0 1 78.585
11620954 GT-AG 0 0.0047511623150656 60 rna-XM_009822970.1 2121776 8 959867 959926 Aphanomyces astaci 112090 CGA|GTACGTTGTC...TATTCCTTCACC/TATTCCTTCACC...AATAG|GAG 0 1 83.406
11620955 GT-AG 0 0.0001568256866964 55 rna-XM_009822970.1 2121776 9 960278 960332 Aphanomyces astaci 112090 GCT|GTACGTCCAT...CTCGTTATGACT/CTCGTTATGACT...GATAG|GCC 0 1 90.733

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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]);