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 = 6846774

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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
35659539 GT-AG 0 0.0002489606740215 94 rna-XM_022056016.1 6846774 1 142 235 Carica papaya 3649 CTC|GTAAGTTTTT...GATGCTTTATGC/TTTATGCTGAGT...TTCAG|TGG 2 1 9.136
35659540 GT-AG 0 0.0001066635081983 157 rna-XM_022056016.1 6846774 2 277 433 Carica papaya 3649 GAA|GTAAGTTCTC...ATTTTCTTGTTA/TTCTTGTTAAAT...TCCAG|CTA 1 1 12.063
35659541 GT-AG 0 0.0011421007824956 150 rna-XM_022056016.1 6846774 3 811 960 Carica papaya 3649 CAG|GTATTCAACA...TATGATTTGACT/TATGATTTGACT...TGCAG|GGC 0 1 38.972
35659542 GT-AG 0 0.002565026930296 177 rna-XM_022056016.1 6846774 4 1157 1333 Carica papaya 3649 CTA|GTAAGTTGTA...TCAGCCTTGACT/TGTCATCTCATC...AACAG|ATT 1 1 52.962
35659543 GT-AG 0 1.000000099473604e-05 217 rna-XM_022056016.1 6846774 5 1487 1703 Carica papaya 3649 AAG|GTAGTTGCAC...AATGTTTTATCT/TTTTATCTTACA...TACAG|ATC 1 1 63.883
35659544 GT-AG 0 0.0054404672292815 128 rna-XM_022056016.1 6846774 6 1823 1950 Carica papaya 3649 AAG|GTATTCTATA...CAGCACTTCACT/CAGCACTTCACT...TGCAG|GGT 0 1 72.377
35659545 GT-AG 0 1.000000099473604e-05 142 rna-XM_022056016.1 6846774 7 2162 2303 Carica papaya 3649 TTG|GTAAAGTTCT...AAAATTTTATTG/TAAAATTTTATT...TGAAG|GCC 1 1 87.438

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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]);