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 = 21575160

✎ 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
116649259 GT-AG 0 1.000000099473604e-05 3669 rna-XM_008935128.1 21575160 1 59949 63617 Merops nubicus 57421 ATG|GTAATGTACT...CTGCTCTTGCCT/AGGGTGGTAACT...GGCAG|ATG 1 1 21.212
116649260 GT-AG 0 0.0438068932333714 1244 rna-XM_008935128.1 21575160 2 63836 65079 Merops nubicus 57421 GAG|GTAACCTGAC...CTTTCTTTACCC/GCTTTCTTTACC...TTTAG|GCC 0 1 39.066
116649261 GT-AG 0 0.0001734909988515 5020 rna-XM_008935128.1 21575160 3 65330 70349 Merops nubicus 57421 ACG|GTATAGTACA...GGTTTTTTCCCC/TTTTCCCCCACT...CACAG|GCC 1 1 59.541
116649262 GT-AG 0 1.000000099473604e-05 564 rna-XM_008935128.1 21575160 4 70549 71112 Merops nubicus 57421 TAG|GTAAGCAACA...TCTATCTTATTA/ATCTATCTTATT...TTCAG|GTT 2 1 75.839
116649263 GT-AG 0 1.000000099473604e-05 2574 rna-XM_008935128.1 21575160 5 71214 73787 Merops nubicus 57421 CAG|GTAAGAGGCT...AATTTCATAAAA/ATGAATTTCATA...TGCAG|AGC 1 1 84.111
116649264 GT-AG 0 1.000000099473604e-05 1456 rna-XM_008935128.1 21575160 6 73875 75330 Merops nubicus 57421 CAG|GTAAATCAAA...TTTTCTTTGTTG/CTTTTACTAATC...TGCAG|CAA 1 1 91.237
116649265 GT-AG 0 7.596962628283441e-05 2427 rna-XM_008935128.1 21575160 7 75415 77841 Merops nubicus 57421 CAG|GTACACGTGC...ATTGTTTTCACT/ATTGTTTTCACT...TCTAG|GAA 1 1 98.116

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]);