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)

9 rows where transcript_id = 6866893

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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
35747033 GT-AG 0 1.000000099473604e-05 29147 rna-XM_008047877.2 6866893 1 217696 246842 Carlito syrichta 1868482 CAG|GTGAGGGTCC...TCTCTTTTGAAT/TCTCTTTTGAAT...AACAG|ATC 0 1 1.758
35747034 GT-AG 0 1.0074043181992555e-05 4696 rna-XM_008047877.2 6866893 2 212859 217554 Carlito syrichta 1868482 CAG|GTATGGATGC...CCGTCTCTGATA/CCGTCTCTGATA...TTTAG|CAG 0 1 12.088
35747035 GT-AG 0 0.0005034479677417 3546 rna-XM_008047877.2 6866893 3 209175 212720 Carlito syrichta 1868482 ATG|GTAATCATTA...TTGCTCTTACTG/TTTGCTCTTACT...GTTAG|CTC 0 1 22.198
35747036 GT-AG 0 1.000000099473604e-05 2175 rna-XM_008047877.2 6866893 4 206625 208799 Carlito syrichta 1868482 ATG|GTAAGGCTTC...CTTTCTTTTGTT/TTTGTTCTGAAC...TTCAG|CTT 0 1 49.67
35747037 GT-AG 0 1.000000099473604e-05 116 rna-XM_008047877.2 6866893 5 206437 206552 Carlito syrichta 1868482 TCT|GTAAGTGAAA...TGACTTTTATTC/ATGACTTTTATT...TTCAG|AAG 0 1 54.945
35747038 GT-AG 0 0.0026507122056833 1632 rna-XM_008047877.2 6866893 6 204634 206265 Carlito syrichta 1868482 GGG|GTATAGTCTG...AATACCTTACTC/AAATACCTTACT...TGCAG|GGA 0 1 67.473
35747039 GT-AG 0 1.000000099473604e-05 1286 rna-XM_008047877.2 6866893 7 203222 204507 Carlito syrichta 1868482 CTG|GTAAATTATG...GGCCTCATGAAT/TCTGGCCTCATG...TCTAG|GGC 0 1 76.703
35747040 GT-AG 0 1.000000099473604e-05 1929 rna-XM_008047877.2 6866893 8 201143 203071 Carlito syrichta 1868482 CCG|GTAGGAGCCA...AAATTTTTGCCA/TTTGCCATCATC...CTCAG|GAC 0 1 87.692
35747041 GT-AG 0 1.000000099473604e-05 534 rna-XM_008047877.2 6866893 9 200472 201005 Carlito syrichta 1868482 GAG|GTAGGTCTCT...GCTGTGTTAACT/ACCCTTCTCATC...TTCAG|CTT 2 1 97.729

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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]);