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 = 32739476

✎ View and edit SQL

This data as json, CSV (advanced)

Suggested facets: 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
183116732 GT-AG 0 1.000000099473604e-05 264 rna-XM_011084375.2 32739476 2 1173365 1173628 Sesamum indicum 4182 GAG|GTCGTAAATC...GGTTCCCTGACC/CCATTTCTGATC...TTCAG|GTG 0 1 18.468
183116733 GT-AG 0 1.000000099473604e-05 385 rna-XM_011084375.2 32739476 3 1173842 1174226 Sesamum indicum 4182 AAG|GTGAGAATTA...ATTGCCTTCAAA/GATTGATTCATT...TGCAG|ACA 0 1 24.056
183116734 GT-AG 0 0.0002589846026198 1188 rna-XM_011084375.2 32739476 4 1175105 1176292 Sesamum indicum 4182 CCC|GTAAGTTCCG...TGATTGTTAATA/AGTTATCTTATG...TGCAG|ACA 2 1 47.088
183116735 GT-AG 0 0.0002937396893326 586 rna-XM_011084375.2 32739476 5 1176591 1177176 Sesamum indicum 4182 CAG|GTAGTCTTGG...GCACCTCTAATG/TAAAATCTAATT...TACAG|ATT 0 1 54.906
183116736 GT-AG 0 4.146868024435496e-05 718 rna-XM_011084375.2 32739476 6 1178122 1178839 Sesamum indicum 4182 CAG|GTAAATTTCT...TCGAACTTGACT/TCGAACTTGACT...TTCAG|GTT 0 1 79.696
183116737 GT-AG 0 0.0006885701939486 262 rna-XM_011084375.2 32739476 7 1179112 1179373 Sesamum indicum 4182 CAG|GTACATATCT...GGTCTCTTAATT/TTTATTCTCAAA...ATTAG|GCT 2 1 86.831
183125160 GT-AG 0 0.0002232810544597 1075 rna-XM_011084375.2 32739476 1 1171774 1172848 Sesamum indicum 4182 AAA|GTAAGTTCAT...ATTTCTTTAATT/CTTTAATTCATC...TGCAG|ATG   0 4.932

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]);