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)

9 rows where transcript_id = 38690333

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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
213933283 GT-AG 0 1.000000099473604e-05 103 rna-XM_016046245.2 38690333 2 36553609 36553711 Ziziphus jujuba 326968 AAG|GTGAGGACGA...TTTTCCTTTTCT/AGATTTTTGAAA...GGCAG|ATG 2 1 9.514
213933284 GT-AG 0 1.000000099473604e-05 114 rna-XM_016046245.2 38690333 3 36553312 36553425 Ziziphus jujuba 326968 AAG|GTTGTATAAG...TTCCTTTTGATT/TTTGATTTGATT...TCCAG|GTT 2 1 13.349
213933285 GT-AG 0 1.000000099473604e-05 92 rna-XM_016046245.2 38690333 4 36553120 36553211 Ziziphus jujuba 326968 CAG|GTAGTAATTG...ACTTGTTTACTG/TACTTGTTTACT...TCCAG|GGT 0 1 15.444
213933286 GT-AG 0 0.0089100776318597 2729 rna-XM_016046245.2 38690333 5 36550360 36553088 Ziziphus jujuba 326968 TGG|GTATGTCTCA...CAGTTTTTAATA/CAGTTTTTAATA...TTCAG|GCA 1 1 16.094
213933287 GT-AG 0 1.000000099473604e-05 180 rna-XM_016046245.2 38690333 6 36550137 36550316 Ziziphus jujuba 326968 AAA|GTAATGCATC...GTTTTGTTAATC/GTTTTGTTAATC...TGTAG|GAA 2 1 16.995
213933288 GT-AG 0 1.000000099473604e-05 1081 rna-XM_016046245.2 38690333 7 36548903 36549983 Ziziphus jujuba 326968 GAA|GTAAGAGTCC...CTCTTTTTAATA/CTCTTTTTAATA...TGCAG|CGA 2 1 20.201
213933289 GT-AG 0 0.0136830526002849 156 rna-XM_016046245.2 38690333 8 36546496 36546651 Ziziphus jujuba 326968 CAG|GTATTTTTTG...AGTTCTTGATTT/TCTTGATTTACA...AACAG|CCT 0 1 67.372
213933290 GT-AG 0 1.000000099473604e-05 661 rna-XM_016046245.2 38690333 9 36544427 36545087 Ziziphus jujuba 326968 AAG|GTAATATATA...TACATCTGAATA/GCTGAATTTATT...AATAG|TTC 1 1 96.878
213933291 GT-AG 0 1.000000099473604e-05 183 rna-XM_016046245.2 38690333 10 36544160 36544342 Ziziphus jujuba 326968 AAG|GTGACACTAT...AGTTTTCTAACA/AGTTTTCTAACA...TTCAG|CTC 1 1 98.638

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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]);