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)

8 rows where transcript_id = 38490410

✎ View and edit SQL

This data as json, CSV (advanced)

Suggested facets: score, 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
213116034 GT-AG 0 1.000000099473604e-05 102 rna-XM_008659601.3 38490410 2 82827009 82827110 Zea mays 4577 CAG|GTAGGTTAAT...TTGGTATTAACC/TTGGTATTAACC...TCCAG|AAA 2 1 34.532
213116035 GT-AG 0 3.225759377661261e-05 469 rna-XM_008659601.3 38490410 3 82827253 82827721 Zea mays 4577 TAT|GTAAGTTGAG...AGTGCCTGAATT/CTGAATTTTACC...TCCAG|GGC 0 1 36.93
213116036 GT-AG 0 7.098279941952879e-05 95 rna-XM_008659601.3 38490410 4 82830047 82830141 Zea mays 4577 CTT|GTAAGTTGAT...TGCATTTTGATT/TGCATTTTGATT...GGCAG|GAT 0 1 76.19
213116037 GT-AG 0 1.000000099473604e-05 357 rna-XM_008659601.3 38490410 5 82830236 82830592 Zea mays 4577 CAG|GTTTGTGCAG...TCTTTTTCAACT/TTCTTTTTCAAC...TGTAG|GAA 1 1 77.778
213116038 GT-AG 0 1.000000099473604e-05 1338 rna-XM_008659601.3 38490410 6 82831087 82832424 Zea mays 4577 CAG|GTCTGTGACT...GCCATCTAACTC/ATCTAACTCATT...TTCAG|GCA 0 1 86.12
213116039 GT-AG 0 3.670662071637289e-05 253 rna-XM_008659601.3 38490410 7 82833103 82833355 Zea mays 4577 AAG|GTATTGTATT...TTCCTCTGGCCT/ATAATACTGACA...GACAG|ATC 0 1 97.568
213116040 GT-AG 0 1.249491278912776e-05 235 rna-XM_008659601.3 38490410 8 82833431 82833665 Zea mays 4577 AAG|GTACAGCATG...TGGGTTTTAACT/TGTTTTTTTACC...TGCAG|ATT 0 1 98.835
213136362 GT-AG 0 0.0019189075387294 179 rna-XM_008659601.3 38490410 1 82825276 82825454 Zea mays 4577 CAG|GTATGCCCGT...TTTTTTTTTGCA/TTTTTTTGCAAA...ACCAG|CTC   0 8.612

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]);