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 = 30863723

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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
172492135 GT-AG 0 4.914533152066852e-05 86 rna-XM_025312273.1 30863723 1 1017488 1017573 Rhizophagus irregularis 588596 GAA|GTAAAATATC...CATTTTTTAATA/CATTTTTTAATA...TTTAG|AAT 1 1 17.441
172492136 GT-AG 0 0.0002950942179373 75 rna-XM_025312273.1 30863723 2 1017610 1017684 Rhizophagus irregularis 588596 TTG|GTAATTTTAA...TAATTTTTATCT/TTTTATCTAATT...CACAG|AAT 1 1 19.865
172492137 GT-AG 0 0.0488679780880534 73 rna-XM_025312273.1 30863723 3 1018060 1018132 Rhizophagus irregularis 588596 TGG|GTATTTATTA...AATTTTTTATTG/AAATTTTTTATT...AATAG|ATA 1 1 45.118
172492138 GT-AG 0 1.000000099473604e-05 92 rna-XM_025312273.1 30863723 4 1018183 1018274 Rhizophagus irregularis 588596 AAG|GTAAAACAAA...TCATCTTTACTT/CAAATCCTCATC...ACTAG|TTG 0 1 48.485
172492139 GT-AG 0 1.000000099473604e-05 89 rna-XM_025312273.1 30863723 5 1018873 1018961 Rhizophagus irregularis 588596 GGG|GTGCGTAGAT...TTACCTTTACTT/TATTAACTTACT...ATCAG|TTC 1 1 88.754
172492140 GT-AG 0 1.000000099473604e-05 70 rna-XM_025312273.1 30863723 6 1018980 1019049 Rhizophagus irregularis 588596 ACG|GTAACGAAAA...ATTCTCATAAAA/ACCATTCTCATA...TTTAG|GCA 1 1 89.966
172492141 GT-AG 0 0.0191262477343225 133 rna-XM_025312273.1 30863723 7 1019155 1019287 Rhizophagus irregularis 588596 CAG|GTATTTATTT...TTCTTTTTATTT/TTTCTTTTTATT...AAAAG|TAA 1 1 97.037
172492142 GT-AG 0 5.173129549655287e-05 77 rna-XM_025312273.1 30863723 8 1019320 1019396 Rhizophagus irregularis 588596 GAG|GTTTGTTTAT...TTTTTTTTGGTT/TTTTGGTTAATA...TGTAG|GTT 0 1 99.192

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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]);