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)

9 rows where transcript_id = 10029684

✎ View and edit SQL

This data as json, CSV (advanced)

Suggested facets: dinucleotide_pair, score, phase

id ▼ dinucleotide_pair is_minor score length transcript_id ordinal_index start end taxonomy_id scored_motifs phase in_cds relative_position
55136220 GT-AG 0 1.000000099473604e-05 269 rna-XM_031886316.1 10029684 1 13928525 13928793 Cucumis sativus 3659 TAA|GTAATTGATA...GTATCTGTAATA/CTAGTTATTACA...TGCAG|TTT 1 1 4.419
55136221 GT-AG 0 1.000000099473604e-05 732 rna-XM_031886316.1 10029684 2 13927092 13927823 Cucumis sativus 3659 CAG|GTGATGTGAT...AAACTCTTGGCC/GATTGTGTAAAA...TGCAG|GCA 0 1 24.934
55136222 GT-AG 0 0.0876416886206503 77 rna-XM_031886316.1 10029684 4 13926791 13926867 Cucumis sativus 3659 GAG|GTATGCCTGT...TTTTCTTTGATC/CTGTTACTTATT...TGCAG|ATT 0 1 31.431
55136223 TA-AA 0 0.0001367354453024 4719 rna-XM_031886316.1 10029684 5 13920734 13925452 Cucumis sativus 3659 GAA|TAAAGCAATA...CTTTCCATAATT/TCCATAATTATT...AACAA|GGA 0 1 70.588
55136224 GT-AG 0 0.0080063550709981 76 rna-XM_031886316.1 10029684 6 13920158 13920233 Cucumis sativus 3659 CAG|GTATTCCCTC...AAAGTCTTGAAA/ATCAAGTTAATA...TGCAG|GGC 2 1 85.221
55136225 GT-AG 0 5.6448167141012896e-05 769 rna-XM_031886316.1 10029684 7 13919265 13920033 Cucumis sativus 3659 CTG|GTAATTAAAT...GATTCCTTAACA/ACATGTTTGATT...CACAG|ATT 0 1 88.85
55136226 GT-AG 0 1.000000099473604e-05 554 rna-XM_031886316.1 10029684 8 13918639 13919192 Cucumis sativus 3659 ATG|GTAAGATGGT...TAACCTTTAATA/TTTATTCTTACT...GGCAG|AGT 0 1 90.957
55136227 GT-AG 0 1.000000099473604e-05 175 rna-XM_031886316.1 10029684 9 13918365 13918539 Cucumis sativus 3659 AAG|GTCAGTAAAT...GGTTTGTTCATG/GGTTTGTTCATG...GGCAG|GGG 0 1 93.854
55136228 GT-AG 0 1.000000099473604e-05 4831 rna-XM_031886316.1 10029684 10 13913492 13918322 Cucumis sativus 3659 CAG|GTTCTTAACC...TCGATTTTAATT/TTTAGTTTTATT...ATTAG|ATT 0 1 95.083

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]);