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 = 26701927

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Suggested facets: dinucleotide_pair, score, phase, in_cds

id ▼ dinucleotide_pair is_minor score length transcript_id ordinal_index start end taxonomy_id scored_motifs phase in_cds relative_position
148095555 GC-AG 0 1.000000099473604e-05 689 rna-XM_009485952.1 26701927 2 101838 102526 Pelecanus crispus 36300 TAG|GCAAGTTGAT...TTTACCTTAATT/TATAATTTTATT...TACAG|ATA 1 1 29.745
148095556 GT-AG 0 0.0007224726426163 3656 rna-XM_009485952.1 26701927 3 98101 101756 Pelecanus crispus 36300 TAG|GTATGATATA...TTTTTTTTAATT/TTTTTTTTAATT...TTTAG|GAA 1 1 37.135
148095557 GT-AG 0 1.000000099473604e-05 2351 rna-XM_009485952.1 26701927 4 95562 97912 Pelecanus crispus 36300 TTG|GTCAGTTGTC...ATTTTTTTGGCT/TTGTAGTTCATT...TCCAG|GAA 0 1 54.288
148095558 GT-AG 0 1.000000099473604e-05 1174 rna-XM_009485952.1 26701927 5 94250 95423 Pelecanus crispus 36300 CTG|GTAGGGAAAA...GCTATCTAAAAT/GGTACTCTGATG...CTCAG|CCG 0 1 66.88
148095559 GC-AG 0 1.000000099473604e-05 8679 rna-XM_009485952.1 26701927 6 85425 94103 Pelecanus crispus 36300 GAG|GCAAGTTCTC...GACTCCTTTTCA/CTCCTTTTCATT...TGTAG|AGT 2 1 80.201
148095560 GT-AG 0 1.056559148558793e-05 829 rna-XM_009485952.1 26701927 7 84466 85294 Pelecanus crispus 36300 AAT|GTAAGTACTC...ATTGCCTGATCT/TATTGCCTGATC...TGTAG|ATT 0 1 92.062
148095561 GT-AG 0 1.000000099473604e-05 460 rna-XM_009485952.1 26701927 1 102648 103107 Pelecanus crispus 36300 CTG|GTGAGGATAA...TAAGTCTTAAGG/ATTCTTGTAAGT...AAAAG|GAA   0 19.526

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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]);