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)

9 rows where transcript_id = 33469750

✎ View and edit SQL

This data as json, CSV (advanced)

Suggested facets: dinucleotide_pair, score, phase

id ▼ dinucleotide_pair is_minor score length transcript_id ordinal_index start end taxonomy_id scored_motifs phase in_cds relative_position
187538957 GT-AG 0 1.000000099473604e-05 1114 rna-XM_021451842.1 33469750 1 4620724 4621837 Sorghum bicolor 4558 AAG|GTACGTGCCC...GCAATTTTACCG/TGCAATTTTACC...GACAG|GTG 1 1 3.478
187538958 GT-AG 0 0.0377430328159308 223 rna-XM_021451842.1 33469750 2 4623497 4623719 Sorghum bicolor 4558 CAG|GTATACAATC...GACCCCTTAACC/ATTCCTTTTACT...CACAG|GGG 1 1 44.11
187538959 GT-AG 0 4.4509546586315925e-05 111 rna-XM_021451842.1 33469750 3 4623983 4624093 Sorghum bicolor 4558 GTG|GTAATGTTTC...CCAACCTTACTG/ATCATGTTGATT...ATCAG|ATT 0 1 50.551
187538960 GT-AG 0 2.198618345606272e-05 88 rna-XM_021451842.1 33469750 4 4624304 4624391 Sorghum bicolor 4558 GAG|GTACATACTT...GCATTTTTGTTT/AAACAACTCATG...TGCAG|GTA 0 1 55.694
187538961 GT-AG 0 1.000000099473604e-05 123 rna-XM_021451842.1 33469750 5 4624611 4624733 Sorghum bicolor 4558 CAT|GTAAGTCCTA...GATGACTGAATT/AGATGACTGAAT...GTCAG|GTT 0 1 61.058
187538962 GC-AG 0 1.000000099473604e-05 189 rna-XM_021451842.1 33469750 6 4625700 4625888 Sorghum bicolor 4558 CAG|GCGAGGATAA...TATTTTTCAGTA/TTGTCACTCATT...TGCAG|GCA 0 1 84.717
187538963 GT-AG 0 0.0687038994545716 117 rna-XM_021451842.1 33469750 7 4625985 4626101 Sorghum bicolor 4558 GAG|GTACCCCTTA...GCAGCTTCAGTC/CGAATGCTGACA...CACAG|GTG 0 1 87.068
187538964 GT-AG 0 1.000000099473604e-05 85 rna-XM_021451842.1 33469750 8 4626201 4626285 Sorghum bicolor 4558 CAG|GTCAGCCCCA...CTCCTCTAAACA/TTATCCATCATT...CACAG|GTG 0 1 89.493
187538965 GT-AG 0 1.000000099473604e-05 124 rna-XM_021451842.1 33469750 9 4626476 4626599 Sorghum bicolor 4558 AAG|GTGATCCCTT...GCAACTGTGACA/TGTGACATAATG...TGCAG|CAT 1 1 94.146

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]);