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 = 15733660

✎ 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
84903033 GT-AG 0 1.000000099473604e-05 1477 rna-XM_017747917.1 15733660 1 63361123 63362599 Gossypium arboreum 29729 GAG|GTTATTTTGT...AGATCCATATTT/CACTATCTCATT...GCCAG|CTT 0 1 6.105
84903034 GT-AG 0 1.000000099473604e-05 268 rna-XM_017747917.1 15733660 2 63362810 63363077 Gossypium arboreum 29729 GAT|GTGAGGATCT...TATTCACTAACG/ATAATATTCACT...CACAG|CTT 0 1 12.124
84903035 GT-AG 0 0.0007102345524323 199 rna-XM_017747917.1 15733660 3 63363332 63363530 Gossypium arboreum 29729 AGA|GTAAGCTCCA...TTATTATTATCA/TAACTTCTCATT...ATCAG|GCA 2 1 19.404
84903036 GT-AG 0 1.000000099473604e-05 76 rna-XM_017747917.1 15733660 4 63363802 63363877 Gossypium arboreum 29729 AAG|GTGAGCTATT...ATTATTTTATTT/ATTTTATTTATC...TGCAG|GAA 0 1 27.171
84903037 GT-AG 0 7.17432706584283e-05 654 rna-XM_017747917.1 15733660 5 63363962 63364615 Gossypium arboreum 29729 AAA|GTAAGATTTT...TTGTCTTTGACA/TTTGTATTTATT...GACAG|GCT 0 1 29.579
84903038 GT-AG 0 3.120852909737742e-05 515 rna-XM_017747917.1 15733660 6 63366694 63367208 Gossypium arboreum 29729 AAT|GTAAGTTACT...ACCTTGTTAATC/GAAATTCTGATT...TGCAG|TGG 2 1 89.137
84903039 GT-AG 0 1.000000099473604e-05 1309 rna-XM_017747917.1 15733660 7 63367324 63368632 Gossypium arboreum 29729 CAG|GTAAGGATCT...TTCATGTTAAAT/ATATATTTTATG...GGCAG|TCT 0 1 92.433

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]);