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 = 23121183

✎ 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
125746782 GT-AG 0 1.000000099473604e-05 4512 rna-XM_010278090.2 23121183 1 5304775 5309286 Nelumbo nucifera 4432 AAG|GTAATGTTGC...GATATTATAACA/ATCATGTTTATG...TGCAG|ATG 0 1 13.333
125746783 GT-AG 0 1.000000099473604e-05 2477 rna-XM_010278090.2 23121183 2 5302056 5304532 Nelumbo nucifera 4432 CAG|GTATTACAAA...ACCGTTTAAATT/TTTAAATTAATC...TACAG|GTT 2 1 26.778
125746784 GT-AG 0 1.000000099473604e-05 279 rna-XM_010278090.2 23121183 3 5301575 5301853 Nelumbo nucifera 4432 AAG|GTCTAAACTA...CAACCCTAAATT/TTGCATTTCATT...TACAG|GCT 0 1 38.0
125746785 GT-AG 0 0.0020635388983808 339 rna-XM_010278090.2 23121183 4 5301161 5301499 Nelumbo nucifera 4432 GAT|GTATGTATAG...AAATCCATGAAA/TAGCAATTAATT...TTCAG|GGA 0 1 42.167
125746786 GT-AG 0 0.0008324313695515 384 rna-XM_010278090.2 23121183 5 5300593 5300976 Nelumbo nucifera 4432 GCT|GTAAGTCTCT...TTATTTTTATTT/TTTATTTTTATT...TACAG|ATA 1 1 52.389
125746787 GT-AG 0 1.000000099473604e-05 98 rna-XM_010278090.2 23121183 6 5300325 5300422 Nelumbo nucifera 4432 CAG|GTAGGTGCCG...TCTATTCTGATC/TCTATTCTGATC...TTCAG|GTT 0 1 61.833
125746788 GT-AG 0 1.7754367242189055e-05 257 rna-XM_010278090.2 23121183 7 5300003 5300259 Nelumbo nucifera 4432 TGG|GTAAGCATAT...CAATACTTAAAG/TTAAAGCTAACC...CTCAG|GTT 2 1 65.444

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]);