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 = 29501570

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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
164360550 GT-AG 0 1.2176792214030236e-05 31616 rna-XM_005516258.2 29501570 2 13599742 13631357 Pseudopodoces humilis 181119 CAG|GTACGTATGA...CAATTCTTGTTT/ACGTGATTCAAT...TACAG|GAG 0 1 11.58
164360551 GT-AG 0 1.000000099473604e-05 1889 rna-XM_005516258.2 29501570 3 13597720 13599608 Pseudopodoces humilis 181119 CAG|GTGAGCATGT...TTCACCTGAATT/TGTTTGCTAACA...TAAAG|GAA 1 1 15.45
164360552 GT-AG 0 4.90429455758907e-05 2716 rna-XM_005516258.2 29501570 4 13593466 13596181 Pseudopodoces humilis 181119 AAA|GTAATTCTTG...TTTGCTTTCCTT/ATGAATATAACA...TAAAG|GCA 0 1 60.198
164360553 GT-AG 0 1.000000099473604e-05 614 rna-XM_005516258.2 29501570 5 13592269 13592882 Pseudopodoces humilis 181119 AAG|GTAATATCTT...GGTTTTATGACC/TTGGGTTTTATG...GAAAG|GGA 1 1 77.16
164360554 GT-AG 0 1.000000099473604e-05 1186 rna-XM_005516258.2 29501570 6 13590900 13592085 Pseudopodoces humilis 181119 AAG|GTAGGTAAAC...ACCTTTTTGACT/ACCTTTTTGACT...TTCAG|GAT 1 1 82.485
164360555 GT-AG 0 1.4334474363910762e-05 747 rna-XM_005516258.2 29501570 7 13590046 13590792 Pseudopodoces humilis 181119 AAG|GTAAGTTGAA...AGTTCCTTAATA/TGTTTCCTGATC...TGCAG|GTG 0 1 85.598
164364556 GT-AG 0 1.000000099473604e-05 4158 rna-XM_005516258.2 29501570 1 13631931 13636088 Pseudopodoces humilis 181119 GAG|GTGAGCGAAG...GTACTTTTAATT/GTACTTTTAATT...TTCAG|ACA   0 1.717

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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]);