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 = 34283780

✎ 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
192054390 GT-AG 0 0.0002159577015435 68847 rna-XM_014872805.1 34283780 1 2257590 2326436 Sturnus vulgaris 9172 CAG|GTACCGAACC...TTGTTCTTTTTT/TCTTTTTTTAAT...TGCAG|AAA 0 1 4.249
192054391 GT-AG 0 1.000000099473604e-05 2163 rna-XM_014872805.1 34283780 2 2255358 2257520 Sturnus vulgaris 9172 AGG|GTAAGTCTAA...TTTTGTTTAACC/TTTTGTCTAACT...TCTAG|AAA 0 1 10.765
192054392 GT-AG 0 0.0095365568878897 3633 rna-XM_014872805.1 34283780 3 2251652 2255284 Sturnus vulgaris 9172 CAG|GTAACCTCAT...ATGTTTGTAACC/ATGTTTGTAACC...TTCAG|CTT 1 1 17.658
192054393 GT-AG 0 0.0281251897995217 1745 rna-XM_014872805.1 34283780 4 2249763 2251507 Sturnus vulgaris 9172 TTG|GTAACTTGTT...GTTATTTTAACT/GTTATTTTAACT...TTCAG|GAC 1 1 31.256
192054394 GT-AG 0 0.0009692898346034 1050 rna-XM_014872805.1 34283780 5 2248579 2249628 Sturnus vulgaris 9172 CAG|GTATTTCCCT...GGTCCTTTATTG/AGGTCCTTTATT...TTTAG|CAT 0 1 43.909
192054395 GT-AG 0 1.000000099473604e-05 1406 rna-XM_014872805.1 34283780 6 2247014 2248419 Sturnus vulgaris 9172 GAT|GTGAGATAAC...TAAGATTTGATG/TTAGTATTCACC...TTCAG|ATT 0 1 58.924
192054396 GT-AG 0 1.000000099473604e-05 3114 rna-XM_014872805.1 34283780 7 2243796 2246909 Sturnus vulgaris 9172 TAG|GTAATGCACT...TGGCTCTTGACA/CATCTGCTAACA...GGCAG|AAT 2 1 68.744
192054397 GT-AG 0 1.000000099473604e-05 2410 rna-XM_014872805.1 34283780 8 2241255 2243664 Sturnus vulgaris 9172 CAG|GTAATGTCAG...TAAGCGTTGACA/ACATTTTTAAGC...CTTAG|GTG 1 1 81.114

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]);