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 = 17394041

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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
92860677 GT-AG 0 1.000000099473604e-05 92 rna-XM_039202842.1 17394041 1 518784 518875 Hibiscus syriacus 106335 CAA|GTGAGTCTTT...GGGGTTTTATTT/CTGTGTCTAATC...ATCAG|GAA 0 1 24.894
92860678 GT-AG 0 0.0003455797385428 105 rna-XM_039202842.1 17394041 2 518979 519083 Hibiscus syriacus 106335 AAG|GTTTTTTTTC...GTTTTTGTAATC/GTTTTTGTAATC...TTTAG|GAT 1 1 32.199
92860679 GT-AG 0 0.0006435096667084 174 rna-XM_039202842.1 17394041 3 519182 519355 Hibiscus syriacus 106335 AAG|GTACACGTGA...TTCTCATTGATT/AGTCTTCTCATT...TGCAG|ATT 0 1 39.149
92860680 GC-AG 0 1.000000099473604e-05 98 rna-XM_039202842.1 17394041 4 519487 519584 Hibiscus syriacus 106335 CAG|GCAAGTTATT...TGTACTTTGATT/CTTTGATTCATG...TGTAG|GAT 2 1 48.44
92860681 GT-AG 0 0.1069618440863239 482 rna-XM_039202842.1 17394041 5 519694 520175 Hibiscus syriacus 106335 ATG|GTATGTTTAC...GTGCCCTTAACT/GTGCCCTTAACT...TGAAG|GGA 0 1 56.17
92860682 GT-AG 0 0.0032253484826355 188 rna-XM_039202842.1 17394041 6 520368 520555 Hibiscus syriacus 106335 GAG|GTATTTTATT...TTTTTTTTTGTT/TGGATACTGACC...TGCAG|GTC 0 1 69.787
92860683 GT-AG 0 1.000000099473604e-05 506 rna-XM_039202842.1 17394041 7 520693 521198 Hibiscus syriacus 106335 CAG|GTTAGATAAC...ATGACATTGATT/CATTGATTTATA...TGCAG|CAT 2 1 79.504

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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]);