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)

9 rows where transcript_id = 7679221

✎ View and edit SQL

This data as json, CSV (advanced)

Suggested facets: dinucleotide_pair, phase

id ▼ dinucleotide_pair is_minor score length transcript_id ordinal_index start end taxonomy_id scored_motifs phase in_cds relative_position
40475611 GT-AG 0 1.000000099473604e-05 1233 rna-XM_030783484.1 7679221 1 11686192 11687424 Chanos chanos 29144 CAG|GTTGGTACTC...TGTGCTATAACT/CTATAACTCATT...TTCAG|GTG 0 1 2.066
40475612 GT-AG 0 1.000000099473604e-05 178 rna-XM_030783484.1 7679221 2 11685859 11686036 Chanos chanos 29144 ATT|GTGAGTGTTG...CTTGCCTTGACA/TTTTGACTTATT...TGTAG|GAG 2 1 4.201
40475613 GT-AG 0 1.000000099473604e-05 1132 rna-XM_030783484.1 7679221 3 11684648 11685779 Chanos chanos 29144 AAG|GTTAGTGAGT...AATTTGTTATCT/GAATTTGTTATC...CACAG|ACT 0 1 5.289
40475614 GT-AG 0 1.000000099473604e-05 552 rna-XM_030783484.1 7679221 4 11683960 11684511 Chanos chanos 29144 AAG|GTTAAACACG...TAAACTTTATAC/TTAAACTTTATA...TTTAG|TTC 1 1 7.163
40475615 GT-AG 0 1.000000099473604e-05 811 rna-XM_030783484.1 7679221 5 11682946 11683756 Chanos chanos 29144 GAG|GTGAGTAGAA...CTATTTTTCCCT/TCGGAAATAAGT...GCCAG|ATT 0 1 9.959
40475616 GT-AG 0 1.000000099473604e-05 769 rna-XM_030783484.1 7679221 6 11682040 11682808 Chanos chanos 29144 ATG|GTGAGTCTCT...ATTGCCTTATAG/TATTGCCTTATA...TACAG|GGA 2 1 11.846
40475617 GT-AG 0 1.000000099473604e-05 107 rna-XM_030783484.1 7679221 7 11681794 11681900 Chanos chanos 29144 GAG|GTGAGGCTTT...TTCTTCTTCTTT/CAACTTCTCATC...TAAAG|GTT 0 1 13.76
40475618 GT-AG 0 1.000000099473604e-05 51 rna-XM_030783484.1 7679221 8 11679751 11679801 Chanos chanos 29144 ACG|GTTGATTCAT...GGCACTGTGATG/TGTGATGTCAAA...TTCAG|CAC 0 1 41.198
40475619 AC-GA 0 1.000000099473604e-05 57 rna-XM_030783484.1 7679221 9 11678079 11678135 Chanos chanos 29144 ACC|ACCCAAATGG...GATGCCAAAAAG/TAAGGACTCAAA...CCAGA|CTG 1 1 63.444

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]);