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 = 19748943

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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
105761606 GT-AG 0 1.000000099473604e-05 688 rna-XM_007445533.1 19748943 1 1037630 1038317 Lipotes vexillifer 118797 CCA|GTGCGTGCCG...CTCCTCTTCCTC/CTCCTCCAAACT...CGCAG|GGT 0 1 2.451
105761607 GT-AG 0 1.000000099473604e-05 8924 rna-XM_007445533.1 19748943 2 1038451 1047374 Lipotes vexillifer 118797 AAG|GTACAAGCAT...TTTGCCTTGTGG/AAGATGTTAAGG...TCCAG|GGC 1 1 13.317
105761608 GT-AG 0 0.023610928398601 11194 rna-XM_007445533.1 19748943 3 1047505 1058698 Lipotes vexillifer 118797 CAG|GTAGCCTCAT...TCTGCCTTCTCT/CACTGTCTGACT...CACAG|CAC 2 1 23.938
105761609 GT-AG 0 7.525932068234611e-05 3924 rna-XM_007445533.1 19748943 4 1058901 1062824 Lipotes vexillifer 118797 CCA|GTAAGCCTCA...ATTTTCTGGTTT/CTATATATAATA...ATCAG|GAT 0 1 40.441
105761610 GT-AG 0 3.4294875232645216e-05 6588 rna-XM_007445533.1 19748943 5 1063015 1069602 Lipotes vexillifer 118797 GAA|GTAAGTTGAA...TCTTCCCTAACT/TCTTCCCTAACT...TTTAG|GTT 1 1 55.964
105761611 GT-AG 0 7.860025994091118e-05 2220 rna-XM_007445533.1 19748943 6 1069685 1071904 Lipotes vexillifer 118797 GAG|GTAATTTTTT...AAATCATTATTT/CAAATCATTATT...TTTAG|GGT 2 1 62.663
105761612 GT-AG 0 1.000000099473604e-05 4932 rna-XM_007445533.1 19748943 7 1072023 1076954 Lipotes vexillifer 118797 GAG|GTGAGCGGGG...GCTTTCTTGTTT/GCCTTTCTAATG...TGCAG|GTT 0 1 72.304
105761613 GT-AG 0 1.000000099473604e-05 5071 rna-XM_007445533.1 19748943 8 1077113 1082183 Lipotes vexillifer 118797 CAT|GTGAGTAGGA...TGCATCTTGATG/TGCATCTTGATG...TCTAG|GTT 2 1 85.212

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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]);