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 = 22190679

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Suggested facets: score, phase, in_cds

id ▼ dinucleotide_pair is_minor score length transcript_id ordinal_index start end taxonomy_id scored_motifs phase in_cds relative_position
120267770 GT-AG 0 1.000000099473604e-05 127 rna-XM_022282350.1 22190679 2 3965495 3965621 Momordica charantia 3673 GAG|GTGATTGAAA...AATTTATTGAAT/AATTTATTGAAT...ACTAG|GTG 0 1 20.96
120267771 GT-AG 0 1.000000099473604e-05 519 rna-XM_022282350.1 22190679 3 3965835 3966353 Momordica charantia 3673 AAA|GTGAGTCCAT...CTTTTGTTATCT/TATCTTCTAACC...TCCAG|ATA 0 1 26.372
120267772 GT-AG 0 1.000000099473604e-05 681 rna-XM_022282350.1 22190679 4 3967244 3967924 Momordica charantia 3673 TCC|GTGAGTTACT...TGTTTCTCATTG/ATGTTTCTCATT...GACAG|GCA 2 1 48.984
120267773 GT-AG 0 1.000000099473604e-05 473 rna-XM_022282350.1 22190679 5 3968217 3968689 Momordica charantia 3673 CAG|GTTATTCACT...CCTTTCTTATCT/TCCTTTCTTATC...TTTAG|GTA 0 1 56.402
120267774 GT-AG 0 0.0008197261057583 161 rna-XM_022282350.1 22190679 6 3969632 3969792 Momordica charantia 3673 CAG|GTAACTTAGA...TATCTCTTTTCT/TCGATTCTCAGA...GTCAG|GTT 0 1 80.335
120267775 GT-AG 0 8.948541531774466e-05 558 rna-XM_022282350.1 22190679 7 3970065 3970622 Momordica charantia 3673 CAG|GTAACTAACT...AAATCTGTGATC/ATGTTGTTGAAT...AGCAG|GGC 2 1 87.246
120272213 GT-AG 0 1.000000099473604e-05 580 rna-XM_022282350.1 22190679 1 3964429 3965008 Momordica charantia 3673 AAG|GTACTTGAAT...GAAATTTTAGTA/CTGCCTCTTATG...TGTAG|ATC   0 8.918

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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]);