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 = 3529812

✎ 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
17480894 GT-AG 0 1.000000099473604e-05 2745 rna-XM_034516312.1 3529812 1 8025952 8028696 Arvicanthis niloticus 61156 AAG|GTAAGGCATG...TATGCCATATCT/CCAAACCTCAGT...CCCAG|AAA 0 1 1.035
17480895 GT-AG 0 1.000000099473604e-05 736 rna-XM_034516312.1 3529812 2 8028868 8029603 Arvicanthis niloticus 61156 CTG|GTAAGGCCAC...TTGTCTTTTACT/TTGTCTTTTACT...TACAG|GCT 0 1 3.394
17480896 GT-AG 0 2.125639311207451e-05 377 rna-XM_034516312.1 3529812 3 8032492 8032868 Arvicanthis niloticus 61156 GCA|GTGAGTTGCT...CTCTCCTTGACT/TTGTGCCTGATT...CACAG|GCA 2 1 43.24
17480897 GT-AG 0 1.1900347236063495e-05 369 rna-XM_034516312.1 3529812 4 8033138 8033506 Arvicanthis niloticus 61156 GGG|GTAAGTATGA...ATCTCCTTCCCC/CTTGATCTCCTT...CGCAG|CCC 1 1 46.951
17480898 GT-AG 0 1.000000099473604e-05 63 rna-XM_034516312.1 3529812 5 8033855 8033917 Arvicanthis niloticus 61156 TAG|GTGAACCTTC...TCTCCTCTACCT/TCCTCCTCCACC...ACCAG|CAC 1 1 51.752
17480899 GC-AG 0 1.000000099473604e-05 981 rna-XM_034516312.1 3529812 6 8034190 8035170 Arvicanthis niloticus 61156 GAA|GCTGAGGCTG...AGGTCCTCAGAA/AAGGTCCTCAGA...CACAG|AGA 0 1 55.505
17480900 GT-AG 0 1.000000099473604e-05 1122 rna-XM_034516312.1 3529812 7 8036971 8038092 Arvicanthis niloticus 61156 CCA|GTAGAGGTCT...AGTACTATAAAG/ATAAAGCTGATA...AAGAG|GCA 0 1 80.339

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]);