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)

11 rows where transcript_id = 12947896

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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
69095354 GT-AG 0 1.000000099473604e-05 1597 rna-XM_010925035.3 12947896 1 22628444 22630040 Elaeis guineensis 51953 AAG|GTTAGACTAC...GATTTTTTGAGT/ATGGATCTAACA...TCTAG|GTG 0 1 4.494
69095355 GT-AG 0 0.0013798198878737 1868 rna-XM_010925035.3 12947896 2 22626521 22628388 Elaeis guineensis 51953 TTC|GTAAGTTTTG...TTGATCTTGCCC/CTATAAGTGATT...GTCAG|AGG 1 1 5.966
69095356 GT-AG 0 0.4941066921536706 1029 rna-XM_010925035.3 12947896 3 22625316 22626344 Elaeis guineensis 51953 AAG|GTATCTATAC...GGATCTTTAAAT/TGGATCTTTAAA...TTTAG|GTT 0 1 10.674
69095357 GT-AG 0 1.000000099473604e-05 118 rna-XM_010925035.3 12947896 4 22624976 22625093 Elaeis guineensis 51953 ACA|GTGAGATCAA...TAATTCTTACTT/CTAATTCTTACT...AAAAG|GTT 0 1 16.613
69095358 GT-AG 0 1.000000099473604e-05 126 rna-XM_010925035.3 12947896 5 22624611 22624736 Elaeis guineensis 51953 AAT|GTGAGTCGCT...GTTCTCTTTTTG/TTTGAGTTCAAA...AACAG|GTG 2 1 23.007
69095359 GT-AG 0 0.0064526956763131 127 rna-XM_010925035.3 12947896 6 22623958 22624084 Elaeis guineensis 51953 AAT|GTATCAAAAA...CAATTTGTGATT/TGTGATTTCAAT...TACAG|GGG 0 1 37.079
69095360 GT-AG 0 1.000000099473604e-05 128 rna-XM_010925035.3 12947896 7 22623556 22623683 Elaeis guineensis 51953 AAG|GTGGAATTCT...GCTTCCTTCATT/TTGTTACTGAAT...AGCAG|GTT 1 1 44.409
69095361 GT-AG 0 1.000000099473604e-05 83 rna-XM_010925035.3 12947896 8 22622800 22622882 Elaeis guineensis 51953 CAG|GTTTGATCAC...GTTTCCTTCCTT/ATCTGTTTTACA...CTCAG|TGG 2 1 62.413
69095362 GT-AG 0 0.0094150090951077 92 rna-XM_010925035.3 12947896 9 22622479 22622570 Elaeis guineensis 51953 AAG|GTATCTCATG...ATTACAATAATC/TAGATAATTACA...TGCAG|GTG 0 1 68.539
69095363 GT-AG 0 1.000000099473604e-05 87 rna-XM_010925035.3 12947896 10 22622125 22622211 Elaeis guineensis 51953 AGG|GTGAGCAGCA...TGTGCTTTATTT/CAAGTCCTCATT...GGCAG|GTT 0 1 75.682
69095364 GT-AG 0 0.045888180526514 95 rna-XM_010925035.3 12947896 11 22621766 22621860 Elaeis guineensis 51953 AAG|GTATCATCCG...CTTTTCTTGCTG/TTGCTATTTACC...TGTAG|ACC 0 1 82.745

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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]);