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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)

12 rows where transcript_id = 34480581

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Suggested facets: dinucleotide_pair, 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
193751646 GT-AG 0 6.615414649268073e-05 67 rna-gnl|WGS:MCGN|BCR43DRAFT_mRNA559254 34480581 1 409327 409393 Syncephalastrum racemosum 13706 ATG|GTACATAATC...ATGGTCTAAATT/TGTTTACTCATT...CTCAG|TTT 1 1 4.038
193751647 GT-AG 0 1.4337715216871173e-05 68 rna-gnl|WGS:MCGN|BCR43DRAFT_mRNA559254 34480581 2 409151 409218 Syncephalastrum racemosum 13706 ACT|GTAATTAGAA...CACACTTTCACG/AAGGCACTCACA...ATTAG|GGA 1 1 7.734
193751648 GC-AG 0 1.000000099473604e-05 59 rna-gnl|WGS:MCGN|BCR43DRAFT_mRNA559254 34480581 3 408998 409056 Syncephalastrum racemosum 13706 CAG|GCAAGTCTGC...TTGCTCATATAA/AGTTTGCTCATA...TACAG|AAA 2 1 10.951
193751649 GT-AG 0 1.000000099473604e-05 71 rna-gnl|WGS:MCGN|BCR43DRAFT_mRNA559254 34480581 4 408626 408696 Syncephalastrum racemosum 13706 AGG|GTAAGACAAA...TTTACCTTGTTG/CTTATATTTACC...TTTAG|AGA 0 1 21.253
193751650 GT-AG 0 1.000000099473604e-05 50 rna-gnl|WGS:MCGN|BCR43DRAFT_mRNA559254 34480581 5 408479 408528 Syncephalastrum racemosum 13706 ATG|GTAAATCAGG...AATTCCCCAACG/CCAACGCTCATA...GTTAG|ACG 1 1 24.572
193751651 GC-AG 0 1.000000099473604e-05 58 rna-gnl|WGS:MCGN|BCR43DRAFT_mRNA559254 34480581 6 408347 408404 Syncephalastrum racemosum 13706 CAG|GCAAGTCAAT...TTGAGATTGACC/TTGAGATTGACC...CTTAG|GTT 0 1 27.105
193751652 GT-AG 0 1.000000099473604e-05 51 rna-gnl|WGS:MCGN|BCR43DRAFT_mRNA559254 34480581 7 407870 407920 Syncephalastrum racemosum 13706 AGT|GTAAGAGCGA...AGATTCTCATTG/GAGATTCTCATT...TTTAG|GGC 0 1 41.684
193751653 GT-AG 0 1.000000099473604e-05 62 rna-gnl|WGS:MCGN|BCR43DRAFT_mRNA559254 34480581 8 407468 407529 Syncephalastrum racemosum 13706 AAC|GTAAGTGGAT...AATTTCTTCGTT/AGTCATCTGATG...TCCAG|TGC 1 1 53.32
193751654 GT-AG 0 8.834858217795355e-05 51 rna-gnl|WGS:MCGN|BCR43DRAFT_mRNA559254 34480581 9 407140 407190 Syncephalastrum racemosum 13706 CTT|GTAAGTCATA...ATGCTTTTAACG/ATGCTTTTAACG...TTTAG|AAA 2 1 62.799
193751655 GT-AG 0 1.000000099473604e-05 58 rna-gnl|WGS:MCGN|BCR43DRAFT_mRNA559254 34480581 10 406935 406992 Syncephalastrum racemosum 13706 CAG|GTACAGTGAT...AAGTTCACAACT/CAAAAGCTCATC...TATAG|ACT 2 1 67.83
193751656 GT-AG 0 3.706233524793018e-05 60 rna-gnl|WGS:MCGN|BCR43DRAFT_mRNA559254 34480581 11 406345 406404 Syncephalastrum racemosum 13706 GAT|GTAAGTTGCT...TTCTCCTTCTAC/CTCTGGCTCACA...TTTAG|CGA 1 1 85.969
193751657 GT-AG 0 6.331464701128504e-05 63 rna-gnl|WGS:MCGN|BCR43DRAFT_mRNA559254 34480581 12 406023 406085 Syncephalastrum racemosum 13706 AAA|GTAAATTCGA...CTTTCCTTTTTC/AAGACACTGACG...TGTAG|TGC 2 1 94.832

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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 35.667ms · Data license: ODbL · Data source: Larue & Roy, 2023 · About: Minor Intron Database (WtMTA)