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 = 9887113

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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
54167241 GT-AG 0 1.000000099473604e-05 6237 rna-XM_039349791.1 9887113 2 10578979 10585215 Crotalus tigris 88082 GAG|GTAAGACGAG...TTTTCCCTACCT/CTTTTCCCTACC...GCCAG|ATG 0 1 16.911
54167242 GT-AG 0 1.000000099473604e-05 4900 rna-XM_039349791.1 9887113 3 10585396 10590295 Crotalus tigris 88082 CAG|GTAAGAAAGG...TTGACTTCACCC/ATTGACTTCACC...TGCAG|GCT 0 1 28.895
54167243 GT-AG 0 0.0020514490495349 1848 rna-XM_039349791.1 9887113 4 10590593 10592440 Crotalus tigris 88082 AAC|GTAAGCTTTG...AGCCCTTTTGCC/GCCCTGCTCAAA...CCTAG|ATG 0 1 48.668
54167244 GT-AG 0 1.000000099473604e-05 2201 rna-XM_039349791.1 9887113 5 10592592 10594792 Crotalus tigris 88082 GAG|GTGAGGGGAA...TGTTCCCTGATG/ATTGCTCTGACA...CACAG|GTA 1 1 58.722
54167245 GT-AG 0 1.000000099473604e-05 2056 rna-XM_039349791.1 9887113 6 10595050 10597105 Crotalus tigris 88082 CAG|GTGAGCAGAG...TGGTTCTTATAT/TATTTATTTATT...AACAG|GTG 0 1 75.832
54167246 GT-AG 0 1.000000099473604e-05 4529 rna-XM_039349791.1 9887113 7 10597341 10601869 Crotalus tigris 88082 TAG|GTGAGCCTGG...GCTGCTCTAACT/GCTGCTCTAACT...CCCAG|GGC 1 1 91.478
54167500 GT-AG 0 1.000000099473604e-05 3766 rna-XM_039349791.1 9887113 1 10574965 10578730 Crotalus tigris 88082 GGG|GTGGGCATGC...TTGCTCCTGACA/TTGCTCCTGACA...CACAG|CTT   0 7.324

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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]);