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 = 16792019

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Suggested facets: score, phase

id ▼ dinucleotide_pair is_minor score length transcript_id ordinal_index start end taxonomy_id scored_motifs phase in_cds relative_position
89436674 GT-AG 0 0.0032399172214267 1746 rna-gnl|WGS:WBNJ|HALSEN_R07208_mrna 16792019 1 9095618 9097363 Halcyon senegalensis 342381 CAG|GTACCTCACT...TCACTTTTAGAC/GGATTTTTCATC...CCCAG|GCA 1 1 6.373
89436675 GT-AG 0 1.000000099473604e-05 7879 rna-gnl|WGS:WBNJ|HALSEN_R07208_mrna 16792019 2 9087605 9095483 Halcyon senegalensis 342381 GAG|GTAGATGACT...TGATTCTTTTCC/GAGTCTTTCAGT...TCTAG|GTT 0 1 14.914
89436676 GT-AG 0 1.000000099473604e-05 594 rna-gnl|WGS:WBNJ|HALSEN_R07208_mrna 16792019 3 9086435 9087028 Halcyon senegalensis 342381 CAG|GTAGGTTGGA...CAGTGCTTCTTA/GTGCTTCTTATG...CACAG|ATT 0 1 51.625
89436677 GT-AG 0 1.000000099473604e-05 538 rna-gnl|WGS:WBNJ|HALSEN_R07208_mrna 16792019 4 9085801 9086338 Halcyon senegalensis 342381 GAG|GTAAGATCTT...TAATCCTTGGTT/TCTGTACTGAAT...TAAAG|CTT 0 1 57.744
89436678 GT-AG 0 0.0001252638717655 19260 rna-gnl|WGS:WBNJ|HALSEN_R07208_mrna 16792019 5 9066422 9085681 Halcyon senegalensis 342381 CCA|GTAAGTGTGT...AGCGCCTTGAAC/GTGTAAGTTAAC...CTGAG|ATA 2 1 65.328
89436679 GT-AG 0 1.000000099473604e-05 2460 rna-gnl|WGS:WBNJ|HALSEN_R07208_mrna 16792019 6 9063680 9066139 Halcyon senegalensis 342381 AAG|GTCAGTAAGC...ATATTTTTGTCT/TCAGAATTTATA...AACAG|AAA 2 1 83.301
89436680 GT-AG 0 4.202165923567046e-05 2805 rna-gnl|WGS:WBNJ|HALSEN_R07208_mrna 16792019 7 9060768 9063572 Halcyon senegalensis 342381 CAG|GTAACACTAT...AACTCCTTTTCT/CGTGCTATGAAT...TGCAG|GAA 1 1 90.121

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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]);