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 = 34091312

✎ View and edit SQL

This data as json, CSV (advanced)

Suggested facets: dinucleotide_pair, 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
190849872 GT-AG 0 1.000000099473604e-05 64 rna-XM_013253020.1 34091312 2 2333378 2333441 Stomoxys calcitrans 35570 CAA|GTAAGTACAC...TGTCTCTTTGCT/AATTCGCTCATC...CTCAG|GTT 2 1 6.307
190849873 GT-AG 0 1.000000099473604e-05 57 rna-XM_013253020.1 34091312 3 2333002 2333058 Stomoxys calcitrans 35570 GAG|GTAAGAGATG...ATATTCATGACA/AGCATATTCATG...TCCAG|TTA 0 1 15.369
190849874 GT-AG 0 1.000000099473604e-05 61 rna-XM_013253020.1 34091312 4 2332790 2332850 Stomoxys calcitrans 35570 TTG|GTAGAGTGGC...ATGATTTTGAGT/AGTGTTGTCATT...TGCAG|GGT 1 1 19.659
190849875 GG-AG 0 1.000000099473604e-05 5638 rna-XM_013253020.1 34091312 5 2325957 2331594 Stomoxys calcitrans 35570 ATA|GGACTTGCAG...AAGTTCATTGCA/AAAAAGTTCATT...CTTAG|CAC 2 1 53.608
190849876 GT-AG 0 1.000000099473604e-05 5604 rna-XM_013253020.1 34091312 6 2320085 2325688 Stomoxys calcitrans 35570 CAG|GTTTGTGAAA...TTGTTTTTACTC/TTTGTTTTTACT...TACAG|TTG 0 1 61.222
190849877 GC-AG 0 1.188920533489797e-05 73 rna-XM_013253020.1 34091312 7 2319861 2319933 Stomoxys calcitrans 35570 TTG|GCAAGCTTAT...TTTTTTTTAAAT/TTTTTTTTAAAT...TTCAG|GTT 1 1 65.511
190849878 GT-AG 0 1.000000099473604e-05 1251 rna-XM_013253020.1 34091312 8 2317882 2319132 Stomoxys calcitrans 35570 GAG|GTAAGAAATT...TTTTTTTTATTT/TTTTTTTTTATT...CACAG|TAC 0 1 86.193
190850074 GT-AG 0 0.0006901259180738 2784 rna-XM_013253020.1 34091312 1 2333619 2336402 Stomoxys calcitrans 35570 ACG|GTATGTTACT...AATTGCTGAACT/AATGTGTTCACC...TACAG|GCA   0 4.972

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]);