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 = 34796192

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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
196000494 GT-AG 0 0.0008193948114876 965 rna-XM_043842233.1 34796192 1 16968283 16969247 Telopea speciosissima 54955 AAG|GTTTATTTTC...TTTTTCTAAGTA/ATTTTTCTAAGT...TTCAG|TCG 0 1 78.21
196000495 GT-AG 0 1.000000099473604e-05 96 rna-XM_043842233.1 34796192 2 16969375 16969470 Telopea speciosissima 54955 AAT|GTGAGTAAAC...TCCTCTTTACCT/CTTGGTTTGATC...TGCAG|ATC 1 1 81.147
196000496 GT-AG 0 6.913782005188725e-05 407 rna-XM_043842233.1 34796192 3 16969542 16969948 Telopea speciosissima 54955 AAG|GTTTGTGTTT...ATATCCTTAAAT/TTATTCTTTATA...TATAG|GTA 0 1 82.79
196000497 GT-AG 0 0.0898894736357125 2964 rna-XM_043842233.1 34796192 4 16970191 16973154 Telopea speciosissima 54955 TGG|GTATGCCTCA...AATATTTTGACC/AATATTTTGACC...TTCAG|ATC 2 1 88.388
196000498 GT-AG 0 1.000000099473604e-05 1636 rna-XM_043842233.1 34796192 5 16973242 16974877 Telopea speciosissima 54955 AAG|GTTAGGATAT...ATGTTTTTAACA/ATGTTTTTAACA...TTAAG|GCT 2 1 90.4
196000499 GT-AG 0 2.82447096551272e-05 6574 rna-XM_043842233.1 34796192 6 16974978 16981551 Telopea speciosissima 54955 AAG|GTATGAAATC...CGAGTTTTAATG/ATGTTCCTAACT...ATCAG|ATG 0 1 92.713
196000500 GT-AG 0 2.181551841026444e-05 107 rna-XM_043842233.1 34796192 7 16981751 16981857 Telopea speciosissima 54955 GTG|GTAATTATTG...CTTTCTCTATTA/TGAAGTTTGACT...TTTAG|ATA 1 1 97.317

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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]);