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)

9 rows where transcript_id = 25413731

✎ 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
140208197 GT-AG 0 2.2209481212892227e-05 71 rna-XM_015843773.2 25413731 1 2745010 2745080 Oryza brachyantha 4533 AAG|GTATGATATG...ATGTTGTTGAAG/ATGTTGTTGAAG...TGTAG|GAA 0 1 53.404
140208198 GT-AG 0 1.000000099473604e-05 97 rna-XM_015843773.2 25413731 2 2745168 2745264 Oryza brachyantha 4533 CTG|GTAATGATTT...CTCTCCTTCGCA/AGGTAATTGACT...TGTAG|GTC 0 1 55.321
140208199 GT-AG 0 1.100748818911284e-05 80 rna-XM_015843773.2 25413731 3 2745904 2745983 Oryza brachyantha 4533 AGA|GTAAGTCATT...ATTTTCTGAGTT/TATTTTCTGAGT...TCTAG|GCT 0 1 69.399
140208200 GT-AG 0 0.0010404264201831 98 rna-XM_015843773.2 25413731 4 2746149 2746246 Oryza brachyantha 4533 CAG|GTACTTTCTT...GCCATTTTAACT/ACACTTCTCATC...TGCAG|CGC 0 1 73.034
140208201 GT-AG 0 1.1640145892068482e-05 89 rna-XM_015843773.2 25413731 5 2746542 2746630 Oryza brachyantha 4533 CAG|GTATGGTAAC...CCTTTTTCAATT/TTGCATCTTATT...TTCAG|GAA 1 1 79.533
140208202 GT-AG 0 1.000000099473604e-05 222 rna-XM_015843773.2 25413731 6 2746846 2747067 Oryza brachyantha 4533 CAC|GTAATAGCTC...ATTTACTGAACA/TATATATTTACT...TGCAG|GTG 0 1 84.27
140208203 GT-AG 0 1.000000099473604e-05 86 rna-XM_015843773.2 25413731 7 2747374 2747459 Oryza brachyantha 4533 GAG|GTAGTTCCAA...CAGTTTTTAGAT/ATATTACTCATA...TTTAG|GCC 0 1 91.011
140208204 GT-AG 0 1.000000099473604e-05 154 rna-XM_015843773.2 25413731 8 2747524 2747677 Oryza brachyantha 4533 CAG|GTCCGTCTGA...TTCTCCCTACTT/CTACTTTGTATT...TGCAG|TGA 1 1 92.421
140208205 GT-AG 0 1.000000099473604e-05 238 rna-XM_015843773.2 25413731 9 2747918 2748155 Oryza brachyantha 4533 ATG|GTGAGTCTTC...GTATGTCTGACG/GTATGTCTGACG...TGCAG|GTG 1 1 97.709

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]);