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 = 16807682

✎ View and edit SQL

This data as json, CSV (advanced)

Suggested facets: dinucleotide_pair, score, phase

id ▼ dinucleotide_pair is_minor score length transcript_id ordinal_index start end taxonomy_id scored_motifs phase in_cds relative_position
89547564 GT-AG 0 1.000000099473604e-05 2105 rna-XM_009914211.1 16807682 2 104504 106608 Haliaeetus albicilla 8969 AAG|GTGAATCTAG...TTTGTCTTATGT/TTTTGTCTTATG...TGTAG|GTT 1 1 22.059
89547565 GT-AG 0 1.000000099473604e-05 7958 rna-XM_009914211.1 16807682 3 96427 104384 Haliaeetus albicilla 8969 AGG|GTAAGCAGAA...TTCTGTTTATTC/GTTCTGTTTATT...CACAG|GAC 0 1 29.059
89547566 GT-AG 0 0.0015481223169118 1948 rna-XM_009914211.1 16807682 4 94365 96312 Haliaeetus albicilla 8969 AAG|GTATTGTGTC...CAACTCTTATCT/GCAACTCTTATC...ACAAG|GTG 0 1 35.765
89547567 GT-AG 0 1.000000099473604e-05 2970 rna-XM_009914211.1 16807682 5 91283 94252 Haliaeetus albicilla 8969 ATG|GTAGTGTAGA...ATTTTTTTATTT/TTTTATTTCACT...TGCAG|GGG 1 1 42.353
89547568 GT-AG 0 1.000000099473604e-05 2241 rna-XM_009914211.1 16807682 6 88836 91076 Haliaeetus albicilla 8969 AAG|GTGTGTGTTT...TCTCTCTTTTCT/GATTTTCTCTCT...CTTAG|ATG 0 1 54.471
89547569 GC-AG 0 1.000000099473604e-05 1454 rna-XM_009914211.1 16807682 7 87246 88699 Haliaeetus albicilla 8969 CAG|GCAAGTAAAT...CTTTCTTTATAT/GCTTTCTTTATA...CATAG|ATG 1 1 62.471
89547570 GT-AG 0 1.4681866413251925e-05 3837 rna-XM_009914211.1 16807682 8 83140 86976 Haliaeetus albicilla 8969 GAG|GTAAACACAT...GATATTTTGACA/ACTGTTTTTACC...TCTAG|GTT 0 1 78.294
89547571 GT-AG 0 0.0008373045118799 9666 rna-XM_009914211.1 16807682 9 73244 82909 Haliaeetus albicilla 8969 TCA|GTAAGTTGTA...TCCTCCTTGCTC/CTTGCCCCCACT...CTCAG|CCA 2 1 91.824

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]);