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 = 11121960

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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
61578071 GT-AG 0 0.112032257600186 115 rna-XM_047054310.1 11121960 1 11485390 11485504 Dermatophagoides farinae 6954 CGG|GTATGTTTGT...TTTTCTTTAATT/TTTTCTTTAATT...TATAG|TTG 2 1 1.4
61578072 GT-AG 0 0.0057985312325571 79 rna-XM_047054310.1 11121960 2 11485669 11485747 Dermatophagoides farinae 6954 CAA|GTACGTTCAA...TCATTCTTAATT/TTTTTTTTCATA...AAAAG|ATG 1 1 4.502
61578073 GT-AG 0 1.000000099473604e-05 82 rna-XM_047054310.1 11121960 3 11486020 11486101 Dermatophagoides farinae 6954 AAG|GTGATATATA...TTTTTCTGGAAA/ATTAGATTGATC...TCTAG|AAT 0 1 9.648
61578074 GT-AG 0 1.000000099473604e-05 86 rna-XM_047054310.1 11121960 4 11486234 11486319 Dermatophagoides farinae 6954 AAT|GTAATGAAAC...AACATTTTAATG/ATTTTAATGATT...TATAG|GGT 0 1 12.145
61578075 GT-AG 0 1.2380617842721884e-05 65 rna-XM_047054310.1 11121960 5 11486767 11486831 Dermatophagoides farinae 6954 GTG|GTAAGTATTC...TTATTATTATTT/ATTATTATTATT...TCAAG|CTT 0 1 20.602
61578076 GT-AG 0 0.0082523162126485 64 rna-XM_047054310.1 11121960 6 11487859 11487922 Dermatophagoides farinae 6954 CAG|GTATCAAAAT...TTTTTTTTAAAT/TTTTTTTTAAAT...TGCAG|TGA 1 1 40.03
61578077 GT-AG 0 1.000000099473604e-05 61 rna-XM_047054310.1 11121960 7 11488077 11488137 Dermatophagoides farinae 6954 AAG|GTGGGTTAAC...ATAATCTAAATA/AAATAATTAATC...TTTAG|TTT 2 1 42.944
61578078 GT-AG 0 1.000000099473604e-05 83 rna-XM_047054310.1 11121960 8 11490909 11490991 Dermatophagoides farinae 6954 CAG|GTGTGTAAAG...TTTTTTTTAAAT/TTTTTTTTAAAT...AAAAG|ATT 1 1 95.365

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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]);