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)

8 rows where transcript_id = 37986703

✎ View and edit SQL

This data as json, CSV (advanced)

Suggested facets: dinucleotide_pair, 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
209726736 GT-AG 0 2.703778415006155e-05 2501 rna-XM_047320129.1 37986703 2 3116 5616 Vigna umbellata 87088 CAG|GTTTTGCTTC...GTGTTCTTATTG/AGTGTTCTTATT...CAAAG|TGT 2 1 42.644
209726737 GT-AG 0 0.0003441474008631 172 rna-XM_047320129.1 37986703 3 2862 3033 Vigna umbellata 87088 CAG|GTATTATTAA...TAACCATTATTT/ACTTTTCTAACC...TTCAG|TTT 0 1 52.069
209726738 GC-AG 0 1.000000099473604e-05 149 rna-XM_047320129.1 37986703 4 2651 2799 Vigna umbellata 87088 TAG|GCAAGTTGGA...AATGTTTTGAAT/ATTTTATTTACA...TGCAG|GCA 2 1 59.195
209726739 GT-AG 0 0.0019782603562357 136 rna-XM_047320129.1 37986703 5 2415 2550 Vigna umbellata 87088 AAG|GTATTTCTGT...GTCTTCTTTTCT/TTTTTTGTGATA...GTCAG|AAT 0 1 70.69
209726740 GT-AG 0 1.000000099473604e-05 641 rna-XM_047320129.1 37986703 6 1732 2372 Vigna umbellata 87088 AGG|GTAAATGTTT...TCTTCTATAATG/ATGGATTTCAAA...TACAG|GAG 0 1 75.517
209726741 GT-AG 0 1.000000099473604e-05 933 rna-XM_047320129.1 37986703 7 757 1689 Vigna umbellata 87088 AAG|GTTTGTCACA...TAATTTTTGGTT/TTGTGATTAATT...TGTAG|ATG 0 1 80.345
209726742 GT-AG 0 0.0854887420373636 206 rna-XM_047320129.1 37986703 8 384 589 Vigna umbellata 87088 TGT|GTAAGCTTTC...GTTCCTTTATCT/CTAAATCTAATT...TGCAG|TTG 2 1 99.54
209726743 GT-AG 0 1.000000099473604e-05 362 rna-XM_047320129.1 37986703 1 5856 6217 Vigna umbellata 87088 CAG|GTTAGTGAGC...GATGTTTTACTT/TGATGTTTTACT...TTCAG|CTT   0 16.207

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]);