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 = 8392201

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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
45168781 GT-AG 0 0.001553431363508 1133 rna-XM_004487787.3 8392201 1 18068788 18069920 Cicer arietinum 3827 GAG|GTACTTTTGT...ATCTTTTTACTA/TTACTACTAACA...TGTAG|GCT 0 1 36.391
45168782 GT-AG 0 4.809412848416498e-05 694 rna-XM_004487787.3 8392201 2 18067353 18068046 Cicer arietinum 3827 GAG|GTAAACATTA...AAATCTATAATT/CTTTTACTAATA...GACAG|GTT 0 1 54.962
45168783 GT-AG 0 1.000000099473604e-05 98 rna-XM_004487787.3 8392201 3 18066760 18066857 Cicer arietinum 3827 CAG|GTTGGTCTTG...GCTGTCTTACTT/TGCTGTCTTACT...TGCAG|GAG 0 1 67.368
45168784 GT-AG 0 0.0001031264650359 219 rna-XM_004487787.3 8392201 4 18066449 18066667 Cicer arietinum 3827 TGG|GTAAGCGTTG...GTTTTTTTGAAG/TCTTTGCTAACT...ATCAG|TTA 2 1 69.674
45168785 GT-AG 0 0.0132777876675639 137 rna-XM_004487787.3 8392201 5 18066224 18066360 Cicer arietinum 3827 CAG|GTATTTTATT...TGTACTTTATTT/ATGTACTTTATT...CCTAG|AGG 0 1 71.88
45168786 GT-AG 0 1.000000099473604e-05 94 rna-XM_004487787.3 8392201 6 18066015 18066108 Cicer arietinum 3827 AAG|GTTTGAAGCT...AGGACTTTGACT/GTTTCTTTTACT...ACCAG|TCA 1 1 74.762
45168787 GT-AG 0 1.000000099473604e-05 87 rna-XM_004487787.3 8392201 7 18065801 18065887 Cicer arietinum 3827 CAG|GTAAAGGGGT...ATGTTGTTAAAT/ATTGTGCTTATG...TGTAG|GGG 2 1 77.945
45168788 GT-AG 0 0.0243205503814122 136 rna-XM_004487787.3 8392201 8 18065490 18065625 Cicer arietinum 3827 CAG|GTATCGATCT...ATAACGTTAACT/ATAACGTTAACT...ACCAG|GAT 0 1 82.331

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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]);