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 = 13210826

✎ 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
70382114 GT-AG 0 1.000000099473604e-05 2689 rna-XM_027906299.1 13210826 1 256911 259599 Empidonax traillii 164674 CAA|GTGAGTGGCC...ACTACTTTATTT/AACTACTTTATT...TGCAG|GGT 2 1 6.241
70382115 GT-AG 0 0.0006268640841223 3610 rna-XM_027906299.1 13210826 2 253213 256822 Empidonax traillii 164674 CAG|GTTTGTTTCC...TTTTCCATAATA/TTCTTGTTAAAA...TTCAG|ACC 0 1 18.723
70382116 GT-AG 0 0.0007328589213525 3359 rna-XM_027906299.1 13210826 3 249787 253145 Empidonax traillii 164674 GCT|GTAAGTTCAT...GACTCTTTGACT/TCCTTCCTTATT...TGCAG|GTG 1 1 28.227
70382117 GT-AG 0 2.8409347696120463e-05 611 rna-XM_027906299.1 13210826 4 249126 249736 Empidonax traillii 164674 GAG|GTATGTAAAA...CTGTACTTAGAA/TTAGAACTGATG...CTTAG|GAG 0 1 35.319
70382118 GT-AG 0 1.000000099473604e-05 1119 rna-XM_027906299.1 13210826 5 247908 249026 Empidonax traillii 164674 AAG|GTAGGATAAA...TTCTCTGTAGCT/ACTTCTATTACT...TTTAG|TTT 0 1 49.362
70382119 GT-AG 0 1.000000099473604e-05 302 rna-XM_027906299.1 13210826 6 247472 247773 Empidonax traillii 164674 GGG|GTAAAGCACT...TGCCTCTTGAAC/GGAATTCTAACT...TTCAG|AGA 2 1 68.369
70382120 GT-AG 0 4.093875027406679e-05 2384 rna-XM_027906299.1 13210826 7 244995 247378 Empidonax traillii 164674 AAA|GTAAGTTTCT...TCAACTTTTTCT/AAGACATTCAAC...TGCAG|GCA 2 1 81.56

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]);