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 = 16807688

✎ 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
89547613 GT-AG 0 1.000000099473604e-05 2119 rna-XM_009915447.1 16807688 1 2566 4684 Haliaeetus albicilla 8969 AAG|GTTTGACTTT...AATGTTTAGACT/TGGGTATTTATC...TGTAG|GCC 0 1 9.543
89547614 GT-AG 0 1.000000099473604e-05 2322 rna-XM_009915447.1 16807688 2 4766 7087 Haliaeetus albicilla 8969 CAG|GTGAGGTAGA...GGTTTGTTAACC/AAGAGTTTAACT...GCCAG|ATC 0 1 17.766
89547615 GT-AG 0 1.000000099473604e-05 992 rna-XM_009915447.1 16807688 3 7219 8210 Haliaeetus albicilla 8969 AGG|GTAAGGATGA...ATTTCTTTATTT/GATTTCTTTATT...TACAG|AGT 2 1 31.066
89547616 GT-AG 0 1.000000099473604e-05 2280 rna-XM_009915447.1 16807688 4 8271 10550 Haliaeetus albicilla 8969 GAG|GTGAGAAACT...TGATTTTTAATT/TTTTAATTTATT...CACAG|ATG 2 1 37.157
89547617 GT-AG 0 1.000000099473604e-05 320 rna-XM_009915447.1 16807688 5 10711 11030 Haliaeetus albicilla 8969 CAG|GTCAGTTTAA...CTGGCCTCATTT/CCTGGCCTCATT...ACTAG|CTC 0 1 53.401
89547618 GT-AG 0 1.9846804375381145e-05 1383 rna-XM_009915447.1 16807688 6 11175 12557 Haliaeetus albicilla 8969 CAG|GTAAGCAGTC...GTTTCCTTTTTT/TTTTTTTTCCTC...CGTAG|GTA 0 1 68.02
89547619 GT-AG 0 0.0002729605446255 2420 rna-XM_009915447.1 16807688 7 12679 15098 Haliaeetus albicilla 8969 CAG|GTAACGTTAA...TGGTTGTTGACT/TGGTTGTTGACT...TGCAG|AGC 1 1 80.305

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]);