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 = 14514680

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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
77699984 GT-AG 0 1.000000099473604e-05 6966 rna-XM_027779208.1 14514680 1 1460878 1467843 Falco peregrinus 8954 CCA|GTGAGTAATT...AACCACTTGTCA/AGGTTTGTCACA...AACAG|GCT 1 1 9.084
77699985 GT-AG 0 1.000000099473604e-05 1333 rna-XM_027779208.1 14514680 2 1467960 1469292 Falco peregrinus 8954 GAG|GTAAGGGGAG...TGTGTTTTGTTT/TTGTTTTCTACC...CACAG|TTT 0 1 17.793
77699986 GT-AG 0 1.000000099473604e-05 106 rna-XM_027779208.1 14514680 3 1469507 1469612 Falco peregrinus 8954 CAG|GTAAAATGAA...ATACTGTTAACA/AACATACTAATG...TACAG|GTG 1 1 33.859
77699987 GT-AG 0 0.0003791267924929 3641 rna-XM_027779208.1 14514680 4 1469775 1473415 Falco peregrinus 8954 ACA|GTAGGTATCT...TTTTCCTTTCCC/CACAGCTTAATT...TCCAG|AGA 1 1 46.021
77699988 GT-AG 0 0.0065914857643379 555 rna-XM_027779208.1 14514680 5 1473631 1474185 Falco peregrinus 8954 AAG|GTATGTTTTT...AATGTCATAACT/TCATAACTAATC...CACAG|GTG 0 1 62.162
77699989 GT-AG 0 1.000000099473604e-05 909 rna-XM_027779208.1 14514680 6 1474309 1475217 Falco peregrinus 8954 TTG|GTAAGTATCT...ACATCATTAGCT/CTTTTTTTTAAA...AAAAG|AAT 0 1 71.396
77699990 GT-AG 0 1.000000099473604e-05 176 rna-XM_027779208.1 14514680 7 1475288 1475463 Falco peregrinus 8954 AAG|GTAGGGACTT...CATTCTGTAATA/CTGTTCTTCAGC...CACAG|TTC 1 1 76.652
77699991 GT-AG 0 1.000000099473604e-05 687 rna-XM_027779208.1 14514680 8 1475635 1476321 Falco peregrinus 8954 CAG|GTAAGAGGCT...GGATCTTTTTCT/TAGTGCCTAACG...TTCAG|TGG 1 1 89.489

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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]);