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 = 37957357

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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
209597634 GT-AG 0 1.000000099473604e-05 122 rna-XM_014657405.2 37957357 1 5724919 5725040 Vigna radiata 157791 AAG|GTAAGTTAAC...TGTCTTTTGATT/TCTTCTTTCATT...TACAG|TGC 0 1 6.844
209597635 GT-AG 0 1.000000099473604e-05 417 rna-XM_014657405.2 37957357 2 5725096 5725512 Vigna radiata 157791 TGG|GTAATCCAAA...TAATCAATAATT/TTGATGCTTAAC...TGCAG|AAG 1 1 8.32
209597636 GT-AG 0 1.000000099473604e-05 94 rna-XM_014657405.2 37957357 3 5725692 5725785 Vigna radiata 157791 AAG|GTCATTTTCT...TTTATGTTATCT/ATCTTTGTAATT...CTCAG|GTG 0 1 13.124
209597637 GT-AG 0 4.28235402226255e-05 1726 rna-XM_014657405.2 37957357 4 5726244 5727969 Vigna radiata 157791 ACT|GTAAGTAACT...TGTATTTTATTT/TTGTATTTTATT...TGTAG|ATC 2 1 25.416
209597638 GT-AG 0 1.000000099473604e-05 738 rna-XM_014657405.2 37957357 5 5728511 5729248 Vigna radiata 157791 AAG|GTGAATCACT...TTTATATTATTA/CTATTACTAACC...AGCAG|ATT 0 1 39.936
209597639 GT-AG 0 1.000000099473604e-05 820 rna-XM_014657405.2 37957357 6 5729429 5730248 Vigna radiata 157791 TTG|GTAAGTGCAA...GTATAATTATCA/ATAATTATCACA...ATCAG|GTT 0 1 44.767
209597640 GT-AG 0 0.0005286684083337 301 rna-XM_014657405.2 37957357 7 5731533 5731833 Vigna radiata 157791 AAG|GTATGTTAGC...CTATCATTAATA/CTTTTACTGATG...TTTAG|GCT 0 1 79.227
209597641 GT-AG 0 0.0004191429275458 294 rna-XM_014657405.2 37957357 8 5732250 5732543 Vigna radiata 157791 ATC|GTAAGTTTTC...GAATTTTTCATT/GAATTTTTCATT...TGTAG|ATC 2 1 90.392

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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]);