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 = 30057392

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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
168294026 GT-AG 0 1.000000099473604e-05 3094 rna-XM_007419916.3 30057392 1 1175664 1178757 Python bivittatus 176946 GAG|GTGAGAGAGC...GTATCCTTGCAT/CATTTGTTAAGG...TGCAG|CTT 1 1 9.888
168294027 GT-AG 0 1.5836105159254086e-05 458 rna-XM_007419916.3 30057392 2 1175024 1175481 Python bivittatus 176946 AGG|GTAAGCATGA...TATTTCTTTCCC/GGTTGTATCACA...TCCAG|GTG 0 1 24.402
168294028 GT-AG 0 1.000000099473604e-05 212 rna-XM_007419916.3 30057392 3 1174688 1174899 Python bivittatus 176946 GGG|GTAAGTGCAG...CTGGCTTGAACC/CCTGGCTTGAAC...CACAG|AAA 1 1 34.29
168294029 GT-AG 0 1.000000099473604e-05 607 rna-XM_007419916.3 30057392 4 1173968 1174574 Python bivittatus 176946 GAG|GTGCGTAGGT...GTAACTTTAGTT/TTAATTCTGATT...TCCAG|AAA 0 1 43.301
168294030 GT-AG 0 1.000000099473604e-05 194 rna-XM_007419916.3 30057392 5 1173669 1173862 Python bivittatus 176946 AAG|GTACTGGCTC...AAGCCCTTACCC/TTACCCCTCACT...TGCAG|CGC 0 1 51.675
168294031 GT-AG 0 1.000000099473604e-05 213 rna-XM_007419916.3 30057392 6 1173305 1173517 Python bivittatus 176946 ACA|GTGAGTACTT...TTTTCCTTTTTC/ATGGCGCTTATG...CTCAG|ATG 1 1 63.716
168294032 GT-AG 0 1.000000099473604e-05 80 rna-XM_007419916.3 30057392 7 1173059 1173138 Python bivittatus 176946 GTG|GTAAGAACAG...TGAATCTTAGTT/GTTCTTCTAATT...GGCAG|GAA 2 1 76.954
168294033 GT-AG 0 1.000000099473604e-05 672 rna-XM_007419916.3 30057392 8 1172244 1172915 Python bivittatus 176946 ACA|GTGAGTACAG...AAACTCTTGACA/AAACTCTTGACA...TCCAG|TTA 1 1 88.357

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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]);