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 = 5773954

✎ View and edit SQL

This data as json, CSV (advanced)

Suggested facets: score, in_cds

id ▼ dinucleotide_pair is_minor score length transcript_id ordinal_index start end taxonomy_id scored_motifs phase in_cds relative_position
29498842 GT-AG 0 0.0010901156743679 87 rna-XM_020364119.2 5773954 5 16814170 16814256 Cajanus cajan 3821 CGG|GTATGTTATT...TTTTTTTTCATA/TTTTTTTTCATA...TGCAG|GTT 0 1 68.824
29498843 GT-AG 0 1.000000099473604e-05 134 rna-XM_020364119.2 5773954 6 16814506 16814639 Cajanus cajan 3821 AAG|GTGTGTATTG...CACTTATTAATG/TCATCACTTATT...TGCAG|GTC 0 1 74.159
29498844 GT-AG 0 1.000000099473604e-05 2917 rna-XM_020364119.2 5773954 7 16815363 16818279 Cajanus cajan 3821 GAG|GTAAGTAAGG...TCACTTTTATTT/TTTTATTTCATT...TCTAG|GTT 0 1 89.651
29498845 GT-AG 0 5.446741937650118e-05 35 rna-XM_020364119.2 5773954 8 16818757 16818791 Cajanus cajan 3821 AAC|GTAATCGCTT...ATCACCTAAAGG/GATCACCTAAAG...ATAAG|CAA 0 1 99.871
29502975 GT-AG 0 1.000000099473604e-05 95 rna-XM_020364119.2 5773954 1 16793040 16793134 Cajanus cajan 3821 CAG|GTTTGTTCCT...ATATATATATCA/ATATATATCATA...GACAG|ACA   0 3.6
29502976 GT-AG 0 1.000000099473604e-05 84 rna-XM_020364119.2 5773954 2 16793215 16793298 Cajanus cajan 3821 AAG|GTAAGATCTT...TATTTCTAAGCT/ATATTTCTAAGC...AACAG|CTT   0 5.314
29502977 GT-AG 0 1.000000099473604e-05 17864 rna-XM_020364119.2 5773954 3 16793437 16811300 Cajanus cajan 3821 AAG|GTAAGATTCT...TAGTTTTTGATT/TTTGTTTTCACT...AGAAG|AGA   0 8.271

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]);