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 = 27640375

✎ View and edit SQL

This data as json, CSV (advanced)

Suggested facets: score, length, phase

id ▼ dinucleotide_pair is_minor score length transcript_id ordinal_index start end taxonomy_id scored_motifs phase in_cds relative_position
153796219 GT-AG 0 4.3146677917251045e-05 68 rna-gnl|WGS:JAFJYM|IUM83_01900-RB_mrna 27640375 1 979861 979928 Phytophthora cinnamomi 4785 CTG|GTACGCCGTT...ATCGCCCTGCCG/TTACGGCTGACG...TACAG|CAT 0 1 11.632
153796220 GT-AG 0 1.000000099473604e-05 88 rna-gnl|WGS:JAFJYM|IUM83_01900-RB_mrna 27640375 2 979705 979792 Phytophthora cinnamomi 4785 GAG|GTAGGTGGAG...TGTGGTCTAACG/TGTGGTCTAACG...CGAAG|TAG 2 1 15.885
153796221 GT-AG 0 0.0247621323112143 83 rna-gnl|WGS:JAFJYM|IUM83_01900-RB_mrna 27640375 3 979518 979600 Phytophthora cinnamomi 4785 AAG|GTTCCTTGTA...GAGCCTTTAACG/TGCTGTATTATA...ATCAG|AAG 1 1 22.389
153796222 GT-AG 0 0.0069886169777038 67 rna-gnl|WGS:JAFJYM|IUM83_01900-RB_mrna 27640375 4 979417 979483 Phytophthora cinnamomi 4785 ATT|GTACGTTTTG...ATCTGCTTGAAG/AGACGGCTAACT...TGCAG|GCC 2 1 24.515
153796223 GT-AG 0 1.000000099473604e-05 99 rna-gnl|WGS:JAFJYM|IUM83_01900-RB_mrna 27640375 5 979152 979250 Phytophthora cinnamomi 4785 AAG|GTGCGGCGGG...CAGCCATTGAGT/CAGCCACTGATC...CGCAG|CCT 0 1 34.897
153796224 GT-AG 0 6.17048153957381e-05 67 rna-gnl|WGS:JAFJYM|IUM83_01900-RB_mrna 27640375 6 978647 978713 Phytophthora cinnamomi 4785 AAG|GTACTGTTTT...TCTAGTTTAATG/TCTAGTTTAATG...TTCAG|ATC 0 1 62.289
153796225 GT-AG 0 0.0002045438665335 79 rna-gnl|WGS:JAFJYM|IUM83_01900-RB_mrna 27640375 7 978491 978569 Phytophthora cinnamomi 4785 GAC|GTACGTGCAT...TAATCCTTACTG/CTAATCCTTACT...CACAG|GAC 2 1 67.104

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]);