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)

6 rows where transcript_id = 12720302

✎ View and edit SQL

This data as json, CSV (advanced)

Suggested facets: phase

id ▼ dinucleotide_pair is_minor score length transcript_id ordinal_index start end taxonomy_id scored_motifs phase in_cds relative_position
67622884 GT-AG 0 1.000000099473604e-05 1003 rna-XM_009898765.1 12720302 1 2210211 2211213 Dryobates pubescens 118200 CGG|GTAAGGGGTG...GTGCCCTCAGAG/AGTGCCCTCAGA...TTCAG|GGC 1 1 5.297
67622885 GT-AG 0 1.000000099473604e-05 756 rna-XM_009898765.1 12720302 2 2209304 2210059 Dryobates pubescens 118200 CAG|GTAGGGCTGG...ACCTCCTTGGGA/CTGGGTGCCACC...TGTAG|GTG 2 1 19.087
67622886 GT-AG 0 1.000000099473604e-05 85 rna-XM_009898765.1 12720302 3 2209115 2209199 Dryobates pubescens 118200 ATG|GTGAGATGGG...CTGGCATTGATG/CTGGCATTGATG...CACAG|CTG 1 1 28.584
67622887 GT-AG 0 1.000000099473604e-05 205 rna-XM_009898765.1 12720302 5 2208482 2208686 Dryobates pubescens 118200 CAG|GTGGGGTTGG...GGTTCCTCTCCC/TTTGGGGTGACG...CCCAG|GTG 0 1 56.986
67622888 GT-AG 0 1.000000099473604e-05 78 rna-XM_009898765.1 12720302 6 2208172 2208249 Dryobates pubescens 118200 CAG|GTGAGGGACA...GCTCCCTTGTCC/CCCCAGCCCATC...CGCAG|AGA 1 1 78.174
67622889 GT-AG 0 1.000000099473604e-05 79 rna-XM_009898765.1 12720302 7 2207987 2208065 Dryobates pubescens 118200 CAG|GTACTGCCAT...TCCCCCGCAGCC/CCCGCAGCCACT...CCCAG|GTT 2 1 87.854

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]);