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 = 32765257

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Suggested facets: score, length, phase, in_cds

id ▼ dinucleotide_pair is_minor score length transcript_id ordinal_index start end taxonomy_id scored_motifs phase in_cds relative_position
183236545 GT-AG 0 1.000000099473604e-05 96 rna-XM_004951840.3 32765257 1 7882869 7882964 Setaria italica 4555 AAG|GTACGAGTCC...TTTTTTTTCTCT/CGATTTCTGATC...TGCAG|CTG 0 1 1.678
183236546 GT-AG 0 1.000000099473604e-05 88 rna-XM_004951840.3 32765257 2 7882598 7882685 Setaria italica 4555 GAG|GTGAAGCTCG...CTGGTGTTGCCT/CTGTGTGTAATG...TGCAG|GAA 0 1 3.811
183236547 GT-AG 0 0.0166216197133401 466 rna-XM_004951840.3 32765257 3 7876246 7876711 Setaria italica 4555 AAG|GTATATTATG...TTGGTCTTAAAT/TACTTTCTAATT...TACAG|AAG 0 1 72.404
183236548 GT-AG 0 1.000000099473604e-05 140 rna-XM_004951840.3 32765257 4 7875301 7875440 Setaria italica 4555 AAG|GTGAGCTGTC...TGGTTGTTAATA/TGGTTGTTAATA...TGCAG|AAA 1 1 81.785
183236549 GT-AG 0 1.000000099473604e-05 114 rna-XM_004951840.3 32765257 5 7874510 7874623 Setaria italica 4555 ATG|GTAAGTATGT...ATATGCTTACTT/TATATGCTTACT...CGCAG|AAT 0 1 89.675
183236550 GT-AG 0 1.714444730349877e-05 78 rna-XM_004951840.3 32765257 6 7874308 7874385 Setaria italica 4555 AAG|GTAAGCATGT...TCACTTTTAGCT/TACAGACTCACT...TGCAG|CAC 1 1 91.12
183236551 GT-AG 0 0.0002949728052849 78 rna-XM_004951840.3 32765257 7 7874148 7874225 Setaria italica 4555 GTG|GTAACTGCAA...TTCCTTTTATTT/TTTCCTTTTATT...AACAG|GGT 2 1 92.076
183249888 GT-AG 0 1.000000099473604e-05 375 rna-XM_004951840.3 32765257 8 7873662 7874036 Setaria italica 4555 GAG|GTGAGTGATG...TTCATATTAACG/TTCATATTAACG...TGCAG|CTG   0 93.369

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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]);