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 = 11363942

✎ View and edit SQL

This data as json, CSV (advanced)

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
62711253 GT-AG 0 1.000000099473604e-05 1145 rna-GPM918_LOCUS21 11363942 1 72505 73649 Didymodactylos carnosus 1234261 AAG|GTAGGAACGC...TGTTTCTGAATG/ATGTTTCTGAAT...TTTAG|GTT 0 1 3.501
62711254 GT-AG 0 0.0040519541367335 57 rna-GPM918_LOCUS21 11363942 2 73796 73852 Didymodactylos carnosus 1234261 GAG|GTATAATTCA...TTTTCCTAAATT/TTTTTCCTAAAT...TTTAG|TTC 2 1 9.179
62711255 GT-AG 0 1.764559758814807e-05 58 rna-GPM918_LOCUS21 11363942 3 74821 74878 Didymodactylos carnosus 1234261 AAG|GTAAAATTGT...TTGACCTTAATC/TTAATCTTCATT...ATTAG|TCG 1 1 46.83
62711256 GT-AG 0 1.0779117150572336e-05 59 rna-GPM918_LOCUS21 11363942 4 74933 74991 Didymodactylos carnosus 1234261 ATA|GTAAGTTGAC...CGCTTCATAAAC/CAACGCTTCATA...TTTAG|AAA 1 1 48.93
62711257 GT-AG 0 1.000000099473604e-05 75 rna-GPM918_LOCUS21 11363942 5 75348 75422 Didymodactylos carnosus 1234261 CAG|GTAAAAAGAA...AAGCCAATGATT/TAGATACGAATT...TCTAG|GAG 0 1 62.777
62711258 GT-AG 0 0.0001558750461329 135 rna-GPM918_LOCUS21 11363942 6 75606 75740 Didymodactylos carnosus 1234261 GGA|GTAAGTTTAA...AGGATTTTAAAA/AGGACTTTCATG...TATAG|GCA 0 1 69.895
62711259 GT-AG 0 0.0016302184132735 62 rna-GPM918_LOCUS21 11363942 7 75934 75995 Didymodactylos carnosus 1234261 AGA|GTATGTCGAT...ATAATTTTATTG/AATAATTTTATT...TCTAG|ATG 1 1 77.402

Advanced export

JSON shape: default, array, newline-delimited, object

CSV options: 

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]);