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)

7 rows where transcript_id = 22370830

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id ▼ dinucleotide_pair is_minor score length transcript_id ordinal_index start end taxonomy_id scored_motifs phase in_cds relative_position
121405898 GT-AG 0 0.4416345625376734 868 rna-XM_010088267.2 22370830 1 150241 151108 Morus notabilis 981085 ATC|GTAACCATCC...ATGATTTTAAAT/ATGATTTTAAAT...GGCAG|GGA 0 1 26.578
121405899 GT-AG 0 1.000000099473604e-05 94 rna-XM_010088267.2 22370830 2 149984 150077 Morus notabilis 981085 TTG|GTAATGTCTA...TTCTTTCTAATG/TTCTTTCTAATG...GGCAG|GAG 1 1 44.629
121405900 GT-AG 0 0.0907899614502495 111 rna-XM_010088267.2 22370830 3 149802 149912 Morus notabilis 981085 CAG|GTATCCAAAA...AGTTTTCTAATA/AGTTTTCTAATA...GGCAG|GGT 0 1 52.492
121405901 GT-AG 0 1.000000099473604e-05 131 rna-XM_010088267.2 22370830 4 149575 149705 Morus notabilis 981085 GAG|GTCTGTCTTG...TTGGCTTTTCTC/GCTTTTCTCATT...TGCAG|ATC 0 1 63.123
121405902 GT-AG 0 1.000000099473604e-05 448 rna-XM_010088267.2 22370830 5 149013 149460 Morus notabilis 981085 GAG|GTCGTTTGGT...TATCCGTTATCT/CATGCATTCATG...TGCAG|AGC 0 1 75.748
121405903 GT-AG 0 1.864046239552447e-05 119 rna-XM_010088267.2 22370830 6 148825 148943 Morus notabilis 981085 GAG|GTCAGCTGCT...TGGTCCTTATTC/TTGTTTCTAATG...TCCAG|ATA 0 1 83.389
121405904 GT-AG 0 0.0001263858264869 100 rna-XM_010088267.2 22370830 7 148650 148749 Morus notabilis 981085 AAG|GTACATCTTT...TTTTTCTTTTTG/TTTGTTATAATT...ATTAG|GAA 0 1 91.694

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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]);