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 = 20429348

✎ 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
109623108 GT-AG 0 1.000000099473604e-05 283 rna-XM_042643879.1 20429348 1 2993346 2993628 Macadamia integrifolia 60698 CAG|GTGAGGTATT...TTTTCCTTGAAA/TTTTCCTTGAAA...TGCAG|GTT 0 1 25.747
109623109 GT-AG 0 0.0097208186337398 4579 rna-XM_042643879.1 20429348 2 2994580 2999158 Macadamia integrifolia 60698 CCG|GTTTGTTTTA...GGACTCTTATCT/TGGACTCTTATC...ATCAG|ATA 0 1 62.184
109623110 GT-AG 0 1.000000099473604e-05 945 rna-XM_042643879.1 20429348 3 2999249 3000193 Macadamia integrifolia 60698 TTG|GTAATTTGAT...AGGTCTTTCGCT/CTTTCGCTGACC...TACAG|AGG 0 1 65.632
109623111 GT-AG 0 1.000000099473604e-05 4009 rna-XM_042643879.1 20429348 4 3000263 3004271 Macadamia integrifolia 60698 AAG|GTGGGTTTGA...TTTGTTGTATCT/ACTCTGTTCATT...TGCAG|GAT 0 1 68.276
109623112 GT-AG 0 1.000000099473604e-05 440 rna-XM_042643879.1 20429348 5 3004413 3004852 Macadamia integrifolia 60698 CAG|GTCAAGTTAT...TATGCTTTGGTT/AGAATACTGATA...TCCAG|GCT 0 1 73.678
109623113 GT-AG 0 2.000863032590222e-05 1019 rna-XM_042643879.1 20429348 6 3004902 3005920 Macadamia integrifolia 60698 AAG|GTGACGTTTC...TAGATTTTAATT/TAGATTTTAATT...TTCAG|CAT 1 1 75.556
109623114 GT-AG 0 1.000000099473604e-05 1004 rna-XM_042643879.1 20429348 7 3006025 3007028 Macadamia integrifolia 60698 CAA|GTAAGAAAAT...CTCATTTTGATG/CTCATTTTGATG...ATCAG|GAT 0 1 79.54

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]);