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)

8 rows where transcript_id = 12947879

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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
69095097 GT-AG 0 1.000000099473604e-05 6794 rna-XM_010940669.3 12947879 1 45737214 45744007 Elaeis guineensis 51953 CAG|GTGGGTCTTC...TCGTTTTTAAAA/TCGTTTTTAAAA...GTTAG|GTT 0 1 5.576
69095098 GT-AG 0 0.0010230163251384 22554 rna-XM_010940669.3 12947879 2 45714471 45737024 Elaeis guineensis 51953 GAA|GTATGTCCTT...GCAGATTTGACC/CCACATTTCATA...TGCAG|GTA 0 1 10.138
69095099 GT-AG 0 1.000000099473604e-05 131 rna-XM_010940669.3 12947879 3 45714247 45714377 Elaeis guineensis 51953 CAG|GTGAGCTACT...GATCCTTTTGCT/CTTTTGCTAATT...TACAG|ATT 0 1 12.382
69095100 GT-AG 0 1.000000099473604e-05 76 rna-XM_010940669.3 12947879 4 45713988 45714063 Elaeis guineensis 51953 GAG|GTAATTTCAC...TAGATTTTGATC/ATGGTACTTATC...TATAG|GTC 0 1 16.799
69095101 GT-AG 0 1.000000099473604e-05 84 rna-XM_010940669.3 12947879 5 45713801 45713884 Elaeis guineensis 51953 CTG|GTGAGTTCAA...CAGTTCTTATTT/TTATTTCTCACC...TTCAG|CGG 1 1 19.286
69095102 GT-AG 0 0.0003944008068076 4469 rna-XM_010940669.3 12947879 6 45709161 45713629 Elaeis guineensis 51953 AAG|GTATTATGCA...CTCATCTTATTT/ACTCATCTTATT...TGCAG|GCA 1 1 23.413
69095103 GT-AG 0 2.062484154742806e-05 2444 rna-XM_010940669.3 12947879 7 45704282 45706725 Elaeis guineensis 51953 CCT|GTAAGTACAT...TCATCCTTGGTT/TTGGAACTGATT...TCCAG|AAA 0 1 82.187
69095104 GT-AG 0 6.12438805271898e-05 543 rna-XM_010940669.3 12947879 8 45703143 45703685 Elaeis guineensis 51953 GAG|GTAGTGTTAG...ATTATCTTAACA/ATTATCTTAACA...TCCAG|ATC 2 1 96.573

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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]);