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)

6 rows where transcript_id = 25024130

✎ 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
137658433 GT-AG 0 6.583032170906616e-05 69051 rna-gnl|WGS:SJOL|mRNA51 25024130 1 718513 787563 Opisthorchis felineus 147828 AAA|GTAAGTTTTT...GCTTCTTTTTCG/GGCCAATTAACC...TCTAG|GTC 0 1 29.453
137658434 GT-AG 0 3.0383950150637467e-05 8493 rna-gnl|WGS:SJOL|mRNA51 25024130 2 787834 796326 Opisthorchis felineus 147828 CAA|GTAAGTTCGA...TACGTTTTATTT/CTACGTTTTATT...TGCAG|GTT 0 1 35.178
137658435 GT-AG 0 1.000000099473604e-05 8721 rna-gnl|WGS:SJOL|mRNA51 25024130 3 797961 806681 Opisthorchis felineus 147828 CAG|GTAAGCAGCC...TTACTTTTAATT/TTACTTTTAATT...AATAG|GAC 2 1 69.826
137658436 GT-AG 0 1.000000099473604e-05 4826 rna-gnl|WGS:SJOL|mRNA51 25024130 4 807152 811977 Opisthorchis felineus 147828 ACG|GTGAGTTTGT...TCTACCTTCTCC/CTCCTTCTGACT...TTTAG|GAC 1 1 79.792
137658437 GT-AG 0 1.000000099473604e-05 10513 rna-gnl|WGS:SJOL|mRNA51 25024130 5 812049 822561 Opisthorchis felineus 147828 GGA|GTGAGTCTCC...TTTACCTTATTC/ATTTACCTTATT...TCCAG|GTT 0 1 81.298
137658438 GT-AG 0 1.000000099473604e-05 6129 rna-gnl|WGS:SJOL|mRNA51 25024130 6 822815 828943 Opisthorchis felineus 147828 CAG|GTAAGCAACA...CATGTTTTATCC/TCATGTTTTATC...TGCAG|ACA 1 1 86.662

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]);