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)

8 rows where transcript_id = 28932387

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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
161301110 GT-AG 0 0.0022079801223115 189 rna-XM_024584232.1 28932387 1 7794482 7794670 Populus trichocarpa 3694 ACG|GTAACTCACC...CTATTTTTAATT/CTATTTTTAATT...GATAG|GAA 0 1 3.414
161301111 GT-AG 0 0.0108957974004189 88 rna-XM_024584232.1 28932387 2 7797371 7797458 Populus trichocarpa 3694 GAG|GTACTTTTGG...GTTTTCTTATTT/TGTTTTCTTATT...TTCAG|CTC 0 1 62.508
161301112 GT-AG 0 0.0001560865889877 675 rna-XM_024584232.1 28932387 3 7797563 7798237 Populus trichocarpa 3694 CAG|GTATTGTGAT...CAAGTTTTGATC/CAAGTTTTGATC...TTCAG|TGC 2 1 64.784
161301113 GT-AG 0 0.0003103869827471 141 rna-XM_024584232.1 28932387 4 7798308 7798448 Populus trichocarpa 3694 CAG|GTCAACTTTT...TTATTTTTAACT/TTATTTTTAACT...AACAG|CTT 0 1 66.316
161301114 GT-AG 0 1.000000099473604e-05 103 rna-XM_024584232.1 28932387 5 7799310 7799412 Populus trichocarpa 3694 AAG|GTCAGCAGGA...CATATTTTGAAT/CATATTTTGAAT...TGCAG|GTG 0 1 85.161
161301115 GT-AG 0 7.165658537507168e-05 918 rna-XM_024584232.1 28932387 6 7799616 7800533 Populus trichocarpa 3694 AAG|GTATGGCTGG...TATCTTTTATTT/ATATCTTTTATT...GTTAG|TGT 2 1 89.604
161301116 GT-AG 0 0.012113361465681 760 rna-XM_024584232.1 28932387 7 7800658 7801417 Populus trichocarpa 3694 GAG|GTATACGTTG...ATTATCTGAATT/AATTATCTGAAT...TGCAG|GGA 0 1 92.318
161301117 GT-AG 0 1.000000099473604e-05 198 rna-XM_024584232.1 28932387 8 7801625 7801822 Populus trichocarpa 3694 CAG|GTGATTTTCC...ACTTTTGTGATG/ACTTTTGTGATG...TTAAG|GAG 0 1 96.848

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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]);