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 = 14698739

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Suggested facets: score, phase, in_cds

id ▼ dinucleotide_pair is_minor score length transcript_id ordinal_index start end taxonomy_id scored_motifs phase in_cds relative_position
78946036 GT-AG 0 1.000000099473604e-05 321 rna-XM_004288867.2 14698739 2 5359011 5359331 Fragaria vesca 57918 CAG|GTAAATAAGT...AGTACCTTACTG/TAGTACCTTACT...ACCAG|GTA 0 1 20.84
78946037 GT-AG 0 1.000000099473604e-05 228 rna-XM_004288867.2 14698739 3 5358570 5358797 Fragaria vesca 57918 AAG|GTGAGCTCAG...TATCTTTTTATG/TATCTTTTTATG...TGCAG|ACA 0 1 26.26
78946038 GT-AG 0 1.000000099473604e-05 824 rna-XM_004288867.2 14698739 4 5356862 5357685 Fragaria vesca 57918 TCC|GTAAGTACAT...GTGTAGTTAATA/GTGTAGTTAATA...TGCAG|GCA 2 1 48.753
78946039 GT-AG 0 7.748790738210965e-05 425 rna-XM_004288867.2 14698739 5 5356145 5356569 Fragaria vesca 57918 CAG|GTTTTTCTCT...TTCTTTTTGAAA/GGATCTCTCATT...TTTAG|GTG 0 1 56.183
78946040 GT-AG 0 0.0020742282019596 265 rna-XM_004288867.2 14698739 6 5354932 5355196 Fragaria vesca 57918 CAG|GTATGTTTAC...TTTTTCTTCTTT/TCTTCTTTTATG...TTTAG|GTA 0 1 80.305
78946041 GT-AG 0 0.0005815342848242 411 rna-XM_004288867.2 14698739 7 5354249 5354659 Fragaria vesca 57918 TAG|GTAAACTATG...GCCCCTTTAAAT/GAGTGATTCATG...GACAG|AGC 2 1 87.226
78956589 GT-AG 0 2.480569552246113e-05 873 rna-XM_004288867.2 14698739 1 5359843 5360715 Fragaria vesca 57918 AAG|GTAGCACCTT...GATACTTTATGC/GCATTGTTCATC...TGTAG|ACG   0 8.244

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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]);