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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)

10 rows where transcript_id = 34480563

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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
193751491 GT-AG 0 1.000000099473604e-05 109 rna-gnl|WGS:MCGN|BCR43DRAFT_mRNA510463 34480563 1 3289791 3289899 Syncephalastrum racemosum 13706 CCC|GTAAGTCAGA...TCTCTCTTTACG/CATATGCTTATT...GGTAG|GAC 0 1 6.616
193751492 GT-AG 0 0.0151051200574566 69 rna-gnl|WGS:MCGN|BCR43DRAFT_mRNA510463 34480563 2 3290006 3290074 Syncephalastrum racemosum 13706 CAG|GTACCTTCCT...TTGTTTTTGTTC/TTTTTGTTCACG...TTAAG|GAT 1 1 9.956
193751493 GT-AG 0 5.100965405238509e-05 99 rna-gnl|WGS:MCGN|BCR43DRAFT_mRNA510463 34480563 3 3290234 3290332 Syncephalastrum racemosum 13706 CAG|GTATGTGATG...TGTTCTGTGATC/CGATATGTCATA...GACAG|AAC 1 1 14.965
193751494 GT-AG 0 0.0034900721106232 61 rna-gnl|WGS:MCGN|BCR43DRAFT_mRNA510463 34480563 4 3290552 3290612 Syncephalastrum racemosum 13706 AAG|GTACCTCGTT...TAAGTCTTACGC/ATAAGTCTTACG...CCTAG|ATT 1 1 21.865
193751495 GT-AG 0 1.913602776051406e-05 53 rna-gnl|WGS:MCGN|BCR43DRAFT_mRNA510463 34480563 5 3290726 3290778 Syncephalastrum racemosum 13706 AAC|GTAAATCAGA...TTTCTCTTGAGA/AAAAGACTGACA...TTTAG|ACA 0 1 25.425
193751496 GT-AG 0 1.000000099473604e-05 53 rna-gnl|WGS:MCGN|BCR43DRAFT_mRNA510463 34480563 6 3290869 3290921 Syncephalastrum racemosum 13706 CAG|GTTGGTGTAC...CGCCACGTGACA/TGCATGCTGACA...AATAG|CCA 0 1 28.261
193751497 GT-AG 0 1.5279871793338068e-05 61 rna-gnl|WGS:MCGN|BCR43DRAFT_mRNA510463 34480563 7 3291088 3291148 Syncephalastrum racemosum 13706 TGG|GTATGAACTA...TTTTCCACAACT/ACTAAATTGACT...TATAG|GAC 1 1 33.491
193751498 GT-AG 0 1.000000099473604e-05 90 rna-gnl|WGS:MCGN|BCR43DRAFT_mRNA510463 34480563 8 3291538 3291627 Syncephalastrum racemosum 13706 CAG|GTAAGGTGGA...TATACCTAATTT/TTATACCTAATT...TATAG|ACG 0 1 45.747
193751499 GT-AG 0 1.000000099473604e-05 49 rna-gnl|WGS:MCGN|BCR43DRAFT_mRNA510463 34480563 9 3291879 3291927 Syncephalastrum racemosum 13706 ATA|GTAGGTCCAT...GTTTTTCTGATG/GTTTTTCTGATG...CATAG|CCT 2 1 53.655
193751500 GT-AG 0 1.000000099473604e-05 53 rna-gnl|WGS:MCGN|BCR43DRAFT_mRNA510463 34480563 10 3292031 3292083 Syncephalastrum racemosum 13706 TCT|GTGAGTACAC...CTCCTTTTGAAA/GAAATGCTCATA...TATAG|CTC 0 1 56.9

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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]);
Powered by Datasette · Queries took 24.773ms · Data license: ODbL · Data source: Larue & Roy, 2023 · About: Minor Intron Database (WtMTA)