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 = 7665054

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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
40334827 GT-AG 0 0.5319051966950797 414 rna-XM_010001254.1 7665054 1 99191 99604 Chaetura pelagica 8897 GAG|GTATCTCTTG...GTGTCCTTATGC/TGTGTCCTTATG...TGCAG|GAG 1 1 1.767
40334828 GT-AG 0 1.000000099473604e-05 2497 rna-XM_010001254.1 7665054 2 99672 102168 Chaetura pelagica 8897 AAA|GTAAGTCCAG...TCTTCTCTGACT/TCTTCTCTGACT...TGCAG|ACC 2 1 4.967
40334829 GT-AG 0 1.000000099473604e-05 349 rna-XM_010001254.1 7665054 3 102236 102584 Chaetura pelagica 8897 CAT|GTAAGTAGAA...TTTGCTTTGTCT/TAGGGGCTGAGT...TTCAG|GTT 0 1 8.166
40334830 GT-AG 0 1.000000099473604e-05 434 rna-XM_010001254.1 7665054 4 103712 104145 Chaetura pelagica 8897 TAA|GTAAGTAGCA...GTGGTGGTAACA/GTGGTGGTAACA...GACAG|GAA 2 1 61.987
40334831 GT-AG 0 1.000000099473604e-05 666 rna-XM_010001254.1 7665054 5 104345 105010 Chaetura pelagica 8897 GAG|GTGGGAATGG...GGGCCCTTCTCC/ATGCACATCACT...TGCAG|GGC 0 1 71.49
40334832 GT-AG 0 1.000000099473604e-05 471 rna-XM_010001254.1 7665054 6 105167 105637 Chaetura pelagica 8897 ACA|GTGAGTGCTG...CCTGCCTTGACC/CCTGCCTTGACC...TGCAG|CCA 0 1 78.94
40334833 GT-AG 0 7.567107475735919e-05 300 rna-XM_010001254.1 7665054 7 105702 106001 Chaetura pelagica 8897 AAG|GTAACGTGTG...CTGCTCTCAATA/GCTGCTCTCAAT...GCCAG|GGG 1 1 81.996
40334834 GT-AG 0 1.000000099473604e-05 95 rna-XM_010001254.1 7665054 8 106135 106229 Chaetura pelagica 8897 CAG|GTAAGGCTGA...AGAGTCTTGTCA/AGTCTTGTCATC...CACAG|AAG 2 1 88.348

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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]);