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 = 16807691

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id ▼ dinucleotide_pair is_minor score length transcript_id ordinal_index start end taxonomy_id scored_motifs phase in_cds relative_position
89547642 GT-AG 0 1.000000099473604e-05 11010 rna-XM_009915680.1 16807691 1 6591 17600 Haliaeetus albicilla 8969 AAG|GTAATATTTG...TGTTTTTTACTC/TTGTTTTTTACT...TGCAG|AGG 1 1 20.245
89547643 GT-AG 0 0.0001409110416514 1967 rna-XM_009915680.1 16807691 2 17708 19674 Haliaeetus albicilla 8969 GAG|GTAAGCATTT...TTTTTTTTAATT/TTTTTTTTAATT...TTTAG|GCT 0 1 33.374
89547644 GT-AG 0 1.000000099473604e-05 10213 rna-XM_009915680.1 16807691 3 19777 29989 Haliaeetus albicilla 8969 CAG|GTGGGATTGG...GTCATCTTTTCT/CCACTTGTCATC...TCCAG|GAG 0 1 45.89
89547645 GT-AG 0 0.0012942269484427 2206 rna-XM_009915680.1 16807691 4 30113 32318 Haliaeetus albicilla 8969 GAG|GTATGTATGT...TTTCCCTTGCTG/ATGTTTGTGAAT...TCCAG|TCT 0 1 60.982
89547646 GT-AG 0 2.0378127274953357e-05 4581 rna-XM_009915680.1 16807691 5 32358 36938 Haliaeetus albicilla 8969 AAG|GTAAGCTACT...TAACTCTTGTTT/CTCTAATTCATC...CCTAG|AAA 0 1 65.767
89547647 GT-AG 0 1.000000099473604e-05 1413 rna-XM_009915680.1 16807691 6 36996 38408 Haliaeetus albicilla 8969 CAG|GTAAGTACTA...TCCCTCTTGATC/CAGTTTGTTATT...AACAG|GAT 0 1 72.761
89547648 GT-AG 0 1.000000099473604e-05 1319 rna-XM_009915680.1 16807691 7 38458 39776 Haliaeetus albicilla 8969 CAG|GTGACAGCCG...CTTTCTTTCTCC/AAAGCACTGACT...TGTAG|GTG 1 1 78.773

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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]);