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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 = 34480565

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Suggested facets: score, length, phase

id ▼ dinucleotide_pair is_minor score length transcript_id ordinal_index start end taxonomy_id scored_motifs phase in_cds relative_position
193751509 GT-AG 0 1.000000099473604e-05 68 rna-gnl|WGS:MCGN|BCR43DRAFT_mRNA466128 34480565 1 1949202 1949269 Syncephalastrum racemosum 13706 GCA|GTGAGTGATA...GTAATCTCAATG/GGTAATCTCAAT...GACAG|AAT 1 1 3.292
193751510 GT-AG 0 7.497373886144284e-05 57 rna-gnl|WGS:MCGN|BCR43DRAFT_mRNA466128 34480565 2 1949413 1949469 Syncephalastrum racemosum 13706 AAT|GTACGTCTTC...CGCACGTTACAC/ATCAAAATGACA...TGTAG|GTC 0 1 7.862
193751511 GT-AG 0 1.000000099473604e-05 60 rna-gnl|WGS:MCGN|BCR43DRAFT_mRNA466128 34480565 3 1949685 1949744 Syncephalastrum racemosum 13706 AGG|GTAAACAAAG...TAGCGCTTACAG/ATAGCGCTTACA...TATAG|CTT 2 1 14.733
193751512 GT-AG 0 4.680065796950063e-05 50 rna-gnl|WGS:MCGN|BCR43DRAFT_mRNA466128 34480565 4 1949930 1949979 Syncephalastrum racemosum 13706 GAA|GTAAGTCTCG...ATGCTTTTATTC/AATGCTTTTATT...TGTAG|CCA 1 1 20.646
193751513 GT-AG 0 1.000000099473604e-05 54 rna-gnl|WGS:MCGN|BCR43DRAFT_mRNA466128 34480565 5 1950519 1950572 Syncephalastrum racemosum 13706 CAG|GTAAGCCAAT...TAGTCTTTATTG/ATCATACTCAAT...TTTAG|CGG 0 1 37.872
193751514 GT-AG 0 1.000000099473604e-05 53 rna-gnl|WGS:MCGN|BCR43DRAFT_mRNA466128 34480565 6 1950667 1950719 Syncephalastrum racemosum 13706 AAC|GTGCGTATTA...TGGTACTTACTG/ATGGTACTTACT...GTCAG|ATG 1 1 40.876
193751515 GT-AG 0 1.1369028878575164e-05 49 rna-gnl|WGS:MCGN|BCR43DRAFT_mRNA466128 34480565 7 1950962 1951010 Syncephalastrum racemosum 13706 GGG|GTACGTGTAT...TTCGTGTTGATG/TTCGTGTTGATG...GGTAG|AAC 0 1 48.61
193751516 GT-AG 0 0.0732275123228918 49 rna-gnl|WGS:MCGN|BCR43DRAFT_mRNA466128 34480565 8 1951236 1951284 Syncephalastrum racemosum 13706 AGG|GTATGCTTTA...GGAGCCTGAGTA/GAGTAAATCATT...AATAG|GAA 0 1 55.801
193751517 GT-AG 0 0.0019002275060229 50 rna-gnl|WGS:MCGN|BCR43DRAFT_mRNA466128 34480565 9 1951373 1951422 Syncephalastrum racemosum 13706 CAT|GTTTTCCTAT...TTGTGCTCAGTA/ATTGTGCTCAGT...CCGAG|ATC 1 1 58.613
193751518 GT-AG 0 0.000262672143255 62 rna-gnl|WGS:MCGN|BCR43DRAFT_mRNA466128 34480565 10 1951486 1951547 Syncephalastrum racemosum 13706 TGG|GTAGGCATAG...GTCTCATTAACT/GAACGTCTCATT...TATAG|ACT 1 1 60.626

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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 24.128ms · Data license: ODbL · Data source: Larue & Roy, 2023 · About: Minor Intron Database (WtMTA)