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 = 29894892

✎ View and edit SQL

This data as json, CSV (advanced)

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
167376147 GT-AG 0 1.000000099473604e-05 4490 rna-XM_009333564.1 29894892 1 305681 310170 Pygoscelis adeliae 9238 AAG|GTAAGAGAGG...TGAGCCTCAATT/CTCTTTTTCACC...CACAG|ACT 0 1 10.18
167376148 GT-AG 0 0.0005552938739261 3141 rna-XM_009333564.1 29894892 2 310789 313929 Pygoscelis adeliae 9238 AAG|GTATAGTTAT...TTTTTCTTTCTT/TCCACTTTCATA...CAAAG|CCT 0 1 41.018
167376149 GT-AG 0 1.000000099473604e-05 254 rna-XM_009333564.1 29894892 3 314422 314675 Pygoscelis adeliae 9238 GAG|GTGAGTGTAG...GTGGTGTTAGTG/GTGTTAGTGATT...TACAG|GTG 0 1 65.569
167376150 GT-AG 0 1.000000099473604e-05 2846 rna-XM_009333564.1 29894892 4 314810 317655 Pygoscelis adeliae 9238 CAG|GTACGAAGCA...TGTGTCTTTAAT/TGTGTCTTTAAT...TTCAG|GCT 2 1 72.255
167376151 GT-AG 0 0.0088351408841486 193 rna-XM_009333564.1 29894892 5 317783 317975 Pygoscelis adeliae 9238 AGG|GTATGTTTCC...TTATTTTTAAGG/ATTATTTTTAAG...TACAG|GTC 0 1 78.593
167376152 GT-AG 0 1.000000099473604e-05 665 rna-XM_009333564.1 29894892 6 318102 318766 Pygoscelis adeliae 9238 GAG|GTAAGGGACC...TTGCTCTGAACT/TGTGTATTGATG...CGCAG|GTG 0 1 84.88
167376153 GT-AG 0 1.000000099473604e-05 2048 rna-XM_009333564.1 29894892 7 318902 320949 Pygoscelis adeliae 9238 AGG|GTGAGCATGC...GGTTCCTTTACG/ACGAGGTTGACT...CACAG|ACC 0 1 91.617

Advanced export

JSON shape: default, array, newline-delimited, object

CSV options: 

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]);