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 = 15103488

✎ 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
81686548 GT-AG 0 1.000000099473604e-05 2120 rna-XM_019528005.1 15103488 1 3921433 3923552 Gavialis gangeticus 94835 CAG|GTCAGCGCCG...TTTCCCTTCTCT/GCCGCTCTGAGG...TCCAG|GTT 2 1 3.426
81686549 GT-AG 0 1.000000099473604e-05 234 rna-XM_019528005.1 15103488 2 3923983 3924216 Gavialis gangeticus 94835 GAG|GTGGGTGGCC...GGTTCCTTACTG/TGGTTCCTTACT...CCCAG|ATT 0 1 19.977
81686550 GT-AG 0 1.000000099473604e-05 482 rna-XM_019528005.1 15103488 3 3924379 3924860 Gavialis gangeticus 94835 GTG|GTGAGTGCCA...TCCTCCTTTCCG/CACAGCTCCATC...TCCAG|AAT 0 1 26.212
81686551 GT-AG 0 1.000000099473604e-05 311 rna-XM_019528005.1 15103488 4 3925080 3925390 Gavialis gangeticus 94835 AAG|GTGCGTGGGG...ATCTGTTTGCCC/CTTGTGTCCATC...TCCAG|TAC 0 1 34.642
81686552 GT-AG 0 1.000000099473604e-05 114 rna-XM_019528005.1 15103488 5 3925538 3925651 Gavialis gangeticus 94835 GAG|GTAGGGAGGG...GATCCCATGACA/CGTGGCCTCACT...CACAG|GAA 0 1 40.3
81686553 GT-AG 0 1.000000099473604e-05 328 rna-XM_019528005.1 15103488 6 3925893 3926220 Gavialis gangeticus 94835 GTG|GTGAGGCTGG...GTGTCTCTGATG/GTGTCTCTGATG...CACAG|AGA 1 1 49.577
81686554 GT-AG 0 1.000000099473604e-05 390 rna-XM_019528005.1 15103488 7 3926386 3926775 Gavialis gangeticus 94835 TCG|GTGAGGCCCC...CTTCCCTCAGCA/CCTTCCCTCAGC...CCCAG|GCA 1 1 55.928

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]);