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 = 34437922

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Suggested facets: dinucleotide_pair, score, phase

id ▼ dinucleotide_pair is_minor score length transcript_id ordinal_index start end taxonomy_id scored_motifs phase in_cds relative_position
193125509 GT-AG 0 7.255608740171572e-05 163 rna-SMICCKB8_LOCUS96 34437922 1 12184 12346 Symbiodinium sp. kb8 230985 GAG|GTGCCTCATT...CTGGCCATACCA/CCTGGCCATACC...AGCAG|GGA 0 1 15.152
193125510 GT-AG 0 0.0780238201931785 138 rna-SMICCKB8_LOCUS96 34437922 2 11994 12131 Symbiodinium sp. kb8 230985 TAA|GTGTCCCGGT...CCCAGCTTGACG/CCCAGCTTGACG...TCCAG|ATG 1 1 25.657
193125511 GC-AG 0 0.0017841118186385 542 rna-SMICCKB8_LOCUS96 34437922 3 11409 11950 Symbiodinium sp. kb8 230985 GAT|GCTTCTCGAT...ACCGTCTGATCT/TCTGATCTCATG...CCAAG|GGA 2 1 34.343
193125512 GA-AG 0 0.4504451181680671 399 rna-SMICCKB8_LOCUS96 34437922 4 10944 11342 Symbiodinium sp. kb8 230985 CCC|GAAACCTGGT...CAACCCTTATGA/TTCGTGTTCACA...GTAAG|GAC 2 1 47.677
193125513 GC-AG 0 1.000000099473604e-05 343 rna-SMICCKB8_LOCUS96 34437922 5 10564 10906 Symbiodinium sp. kb8 230985 CAG|GCCGACATTC...CAAGCCTTAAGC/CAAGCCTTAAGC...CTCAG|GGA 0 1 55.152
193125514 GC-AG 0 7.106524393239362e-05 489 rna-SMICCKB8_LOCUS96 34437922 6 10013 10501 Symbiodinium sp. kb8 230985 CAC|GCCCCTGGGC...GTAGCTTTGTCC/CTTTGTCCCACT...CAAAG|GTT 2 1 67.677
193125515 GC-AG 0 0.0001066055869624 951 rna-SMICCKB8_LOCUS96 34437922 7 9010 9960 Symbiodinium sp. kb8 230985 AGC|GCCACTTGCC...GGGTACTTACTT/TGGGTACTTACT...TGGAG|GCC 0 1 78.182
193125516 GC-AG 0 1.000000099473604e-05 408 rna-SMICCKB8_LOCUS96 34437922 8 8544 8951 Symbiodinium sp. kb8 230985 GAG|GCCCGGGCGG...TATCCCCGAACC/TATCCCCGAACC...CGGAG|GGC 1 1 89.899

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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]);