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 = 38062803

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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
210096301 GT-AG 0 1.000000099473604e-05 681 rna-XM_034832181.1 38062803 1 1197926 1198606 Vitis riparia 96939 GGG|GTTAGTTCTT...TATGCTTCAACT/TTATGCTTCAAC...TTCAG|GAA 0 1 9.99
210096302 GT-AG 0 1.000000099473604e-05 490 rna-XM_034832181.1 38062803 2 1196827 1197316 Vitis riparia 96939 AGT|GTGAGTTCTC...TTTTCTTTTACA/TTTTCTTTTACA...TTCAG|ATT 0 1 30.27
210096303 GT-AG 0 0.6102190711859291 110 rna-XM_034832181.1 38062803 3 1196287 1196396 Vitis riparia 96939 AAG|GTATACTTTT...TATCTTTTGATC/TTTTGATTGATT...CTCAG|GTG 1 1 44.589
210096304 GT-AG 0 0.0009190800669359 1368 rna-XM_034832181.1 38062803 4 1194593 1195960 Vitis riparia 96939 TTT|GTAAGTATTA...TTATTCTTAATG/TTTATTCTTAAT...TACAG|GTT 0 1 55.445
210096305 GT-AG 0 1.000000099473604e-05 107 rna-XM_034832181.1 38062803 5 1194427 1194533 Vitis riparia 96939 CTG|GTAAGATTGC...ATTTCTTTATTT/TTTATTTTAATT...CATAG|GTA 2 1 57.409
210096306 GT-AG 0 1.000000099473604e-05 615 rna-XM_034832181.1 38062803 6 1193469 1194083 Vitis riparia 96939 GAG|GTGATTTCAA...TCTGTTTTTTCT/CAACCAATAATT...CTTAG|GCT 0 1 68.831
210096307 GT-AG 0 1.000000099473604e-05 106 rna-XM_034832181.1 38062803 7 1193162 1193267 Vitis riparia 96939 CTG|GTGAGGTTTT...CTATGCTTAATT/CTATGCTTAATT...AACAG|GTT 0 1 75.524
210096308 GT-AG 0 1.000000099473604e-05 1044 rna-XM_034832181.1 38062803 8 1191860 1192903 Vitis riparia 96939 GAG|GTCAGTTTTT...ATTTTCTTGGTG/TCAAAATTTATA...AACAG|GTT 0 1 84.116

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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]);