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)

6 rows where transcript_id = 26253862

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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
145281095 GT-AG 0 7.751096200941298e-05 251 rna-gnl|WGS:LOND|AHF37_00041 26253862 1 486055 486305 Paragonimus kellicotti 100269 AAA|GTAAGCGTTT...CGTACCGTAAAC/TGATAAATAATA...CTCAG|CCA 0 1 33.984
145281096 GT-AG 0 8.375560322537156e-05 3178 rna-gnl|WGS:LOND|AHF37_00041 26253862 2 482784 485961 Paragonimus kellicotti 100269 CCG|GTAAGTTTTT...CTTCTTTTATTT/CAAATTTTCATC...TACAG|GAA 0 1 40.039
145281097 GT-AG 0 1.000000099473604e-05 1460 rna-gnl|WGS:LOND|AHF37_00041 26253862 3 481180 482639 Paragonimus kellicotti 100269 AAG|GTGAGTAAAA...CTACCTTTAGTT/TCTACCTTTAGT...AACAG|GTT 0 1 49.414
145281098 GT-AG 0 1.000000099473604e-05 1452 rna-gnl|WGS:LOND|AHF37_00041 26253862 4 479650 481101 Paragonimus kellicotti 100269 CAG|GTAAGTCCAA...TTATTCTTGTTT/ATTTCAATTATT...CGAAG|ATA 0 1 54.492
145281099 GT-AG 0 1.000000099473604e-05 3009 rna-gnl|WGS:LOND|AHF37_00041 26253862 5 476170 479178 Paragonimus kellicotti 100269 GAG|GTAAGCAGAT...TGGTTTATAACC/TGGTTTATAACC...TTCAG|GTT 0 1 85.156
145281100 GT-AG 0 1.000000099473604e-05 4262 rna-gnl|WGS:LOND|AHF37_00041 26253862 6 471729 475990 Paragonimus kellicotti 100269 CGA|GTGAGTGTAA...GTTTCCTTTACT/ATACGTTTGACT...TGCAG|GCC 2 1 96.81

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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]);