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 = 15319293

✎ 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
82923530 GT-AG 0 1.000000099473604e-05 4193 rna-gnl|WGS:VWPO|GLAPRA_R11522_mrna 15319293 1 2886065 2890257 Glareola pratincola 43316 GAG|GTAATATTAT...ATATCCTCAACG/CATATCCTCAAC...TGTAG|ATT 0 1 13.826
82923531 GT-AG 0 1.000000099473604e-05 11708 rna-gnl|WGS:VWPO|GLAPRA_R11522_mrna 15319293 2 2890474 2902181 Glareola pratincola 43316 GTG|GTAAGTTGGA...ATTTCTGTGTCA/AGTAAACTAATG...TGCAG|GGT 0 1 36.977
82923532 GT-AG 0 0.0009471621147327 3580 rna-gnl|WGS:VWPO|GLAPRA_R11522_mrna 15319293 3 2902325 2905904 Glareola pratincola 43316 AAG|GTAATCTTTT...TCTTTCTTGCTT/TATTCTGTGATT...CTTAG|AAT 2 1 52.304
82923533 GT-AG 0 1.000000099473604e-05 1199 rna-gnl|WGS:VWPO|GLAPRA_R11522_mrna 15319293 4 2906009 2907207 Glareola pratincola 43316 ACG|GTGAGTGGAA...ATGTACTCATCT/AATGTACTCATC...TACAG|GTT 1 1 63.451
82923534 GT-AG 0 8.708729722031146e-05 1699 rna-gnl|WGS:VWPO|GLAPRA_R11522_mrna 15319293 5 2907264 2908962 Glareola pratincola 43316 TCA|GTAAGTGTCC...CGTTTCTTGAAA/GTTTTTCTAACC...TCCAG|TGG 0 1 69.453
82923535 GT-AG 0 1.000000099473604e-05 27608 rna-gnl|WGS:VWPO|GLAPRA_R11522_mrna 15319293 6 2909158 2936765 Glareola pratincola 43316 GAG|GTAGGAGCAA...CTTCTCTTAGTG/CCTTCTCTTAGT...TACAG|GTG 0 1 90.354

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]);