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 = 3504104

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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
17295305 GT-AG 0 0.0002239620088227 27381 rna-XM_037138402.1 3504104 2 26991 54371 Artibeus jamaicensis 9417 AAG|GTATATGATT...CTGTACTTAGCT/ATTTTATTCATA...ACTAG|AGT 0 1 34.005
17295306 GT-AG 0 1.000000099473604e-05 6619 rna-XM_037138402.1 3504104 3 20224 26842 Artibeus jamaicensis 9417 CAG|GTAGAATAAT...TTTTTCTTTTCT/TCTCTTCTCATT...TGTAG|ATT 1 1 47.571
17295307 GT-AG 0 1.000000099473604e-05 4100 rna-XM_037138402.1 3504104 4 16055 20154 Artibeus jamaicensis 9417 CAG|GTAATTAGAT...AAATTCTTACAT/GAAATTCTTACA...TTCAG|AGA 1 1 53.896
17295308 GT-AG 0 1.000000099473604e-05 2440 rna-XM_037138402.1 3504104 5 13468 15907 Artibeus jamaicensis 9417 CAG|GTGATATTTA...CTTCTGTTAACT/CTTCTGTTAACT...TATAG|ATT 1 1 67.369
17295309 GT-AG 0 1.000000099473604e-05 4304 rna-XM_037138402.1 3504104 6 8963 13266 Artibeus jamaicensis 9417 CAG|GTAAGGATAG...TGAACCTTACGG/GTGAACCTTACG...TTTAG|GTT 1 1 85.793
17295310 GT-TG 0 4.9545260916386486e-05 3667 rna-XM_037138402.1 3504104 7 5153 8819 Artibeus jamaicensis 9417 GAT|GTAAGTATGA...ATCTTTTTACTC/AATCTTTTTACT...TCATG|CCC 0 1 98.9
17295318 GT-AG 0 1.000000099473604e-05 65476 rna-XM_037138402.1 3504104 1 54511 119986 Artibeus jamaicensis 9417 AAG|GTAAGGGACA...TAACCCTTATAT/TATATATTCATT...TACAG|ATC   0 26.031

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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]);