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)

9 rows where transcript_id = 12917273

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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
68847608 GT-AG 0 6.916210718003384e-05 5588 rna-XM_009642061.2 12917273 1 1141183 1146770 Egretta garzetta 188379 AAG|GTAAGCCGAT...TTTCCCTTAACC/GTTTTCTTAATT...TTAAG|ATT 1 1 1.244
68847609 GT-AG 0 1.000000099473604e-05 550 rna-XM_009642061.2 12917273 2 1140505 1141054 Egretta garzetta 188379 GAG|GTAAGGAGCA...CCAGTCTTAACT/TATGTATTAAAT...TGTAG|CAC 0 1 9.627
68847610 GT-AG 0 0.0001077608071824 12299 rna-XM_009642061.2 12917273 3 1128098 1140396 Egretta garzetta 188379 TCT|GTAAGTTGCG...ATTTCCTTCCAA/AAATATCTGATT...TACAG|ATC 0 1 16.699
68847611 GT-AG 0 0.0148755934018808 1463 rna-XM_009642061.2 12917273 4 1126449 1127911 Egretta garzetta 188379 GAG|GTAACTTTTG...ATTTCTTTCCCA/GCTGAACTTACC...CTCAG|CAT 0 1 28.88
68847612 GT-AG 0 0.0023801846029988 651 rna-XM_009642061.2 12917273 5 1125664 1126314 Egretta garzetta 188379 CAG|GTATCAAAAA...GTTTTCTTTATG/GTTTTCTTTATG...TGCAG|GTA 2 1 37.656
68847613 GT-AG 0 1.000000099473604e-05 1088 rna-XM_009642061.2 12917273 6 1124278 1125365 Egretta garzetta 188379 AAG|GTAAATAGTG...GCTTCTCTGACC/GCTTCTCTGACC...TGCAG|GGT 0 1 57.171
68847614 GT-AG 0 1.000000099473604e-05 185 rna-XM_009642061.2 12917273 7 1123895 1124079 Egretta garzetta 188379 AAG|GTAATCAGCT...TCGTGCTTACCT/CTGGTTCTGAGT...TCCAG|ACT 0 1 70.138
68847615 GT-AG 0 1.000000099473604e-05 453 rna-XM_009642061.2 12917273 8 1123199 1123651 Egretta garzetta 188379 AAG|GTAAACCCCT...TCCCCGTTATTT/ATGGATTTAAAC...AAAAG|GTT 0 1 86.051
68847616 GT-AG 0 1.000000099473604e-05 1312 rna-XM_009642061.2 12917273 9 1121782 1123093 Egretta garzetta 188379 AAG|GTGAGTGTGT...AGTTTCTCATCA/AAGTTTCTCATC...TCCAG|GGA 0 1 92.927

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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]);