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 = 23121185

✎ View and edit SQL

This data as json, CSV (advanced)

Suggested facets: score, length, 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
125746798 GT-AG 0 1.000000099473604e-05 541 rna-XM_010246538.2 23121185 1 6709672 6710212 Nelumbo nucifera 4432 CAG|GTGAGTCGAT...TAGGTCTGATCC/ATAGGTCTGATC...TTCAG|CGA 2 1 6.947
125746799 GT-AG 0 0.0004145298170536 98 rna-XM_010246538.2 23121185 2 6709533 6709630 Nelumbo nucifera 4432 CAG|GTTTGCATTC...ATTTCCTGGATC/TGGGAGTTCATT...TACAG|CTC 1 1 8.821
125746800 GT-AG 0 1.000000099473604e-05 117 rna-XM_010246538.2 23121185 3 6708830 6708946 Nelumbo nucifera 4432 CAA|GTAAGATACA...CGATCCTTACTG/ACTGTTCTAATT...AAAAG|GTA 2 1 35.603
125746801 GT-AG 0 0.0002072396629181 118 rna-XM_010246538.2 23121185 4 6708574 6708691 Nelumbo nucifera 4432 ACT|GTAAGTTCCT...ATTACCTTGTTT/CCTTGTTTGACT...TCCAG|TAC 2 1 41.91
125746802 GT-AG 0 3.079232600046876e-05 100 rna-XM_010246538.2 23121185 5 6708317 6708416 Nelumbo nucifera 4432 TGG|GTATGGTAAT...GTTTCATCAACT/TGATGTTTCATC...GACAG|GTA 0 1 49.086
125746803 GT-AG 0 0.0021154982889459 2939 rna-XM_010246538.2 23121185 6 6704893 6707831 Nelumbo nucifera 4432 GAG|GTATGCAATT...TATGCCTTGGTT/TGATGTCTAAAT...CACAG|GTC 2 1 71.252
125748271 GT-AG 0 0.0152191960659843 100 rna-XM_010246538.2 23121185 7 6704545 6704644 Nelumbo nucifera 4432 CAG|GTATGTTTCT...CACCTTTTATCT/TTTTTGTTAAAA...ACCAG|AAG   0 82.587

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]);