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 = 32077028

✎ View and edit SQL

This data as json, CSV (advanced)

Suggested facets: score, length, phase

id ▼ dinucleotide_pair is_minor score length transcript_id ordinal_index start end taxonomy_id scored_motifs phase in_cds relative_position
179146725 GT-AG 0 3.3048086131501135e-05 46 rna-XM_008605842.1 32077028 1 1157488 1157533 Saprolegnia diclina 112098 AGC|GTGCGCGTCT...CCATCCATAGCC/ATCTGCATGACC...TGTAG|GTG 0 1 2.401
179146726 GT-AG 0 1.000000099473604e-05 50 rna-XM_008605842.1 32077028 2 1158013 1158062 Saprolegnia diclina 112098 GAC|GTGCGAGCTT...TATACCTGAGTG/GCATACCTCACG...CGTAG|CGA 2 1 14.769
179146727 GT-AG 0 1.000000099473604e-05 44 rna-XM_008605842.1 32077028 3 1158193 1158236 Saprolegnia diclina 112098 GCG|GTACAGCGTC...TCAACATTGGAA/GCGATCAACATT...TGTAG|GTC 0 1 18.125
179146728 GT-AG 0 2.4868930959673588e-05 45 rna-XM_008605842.1 32077028 4 1158755 1158799 Saprolegnia diclina 112098 CAC|GTAGGCGACA...GGTTCTATAGCA/GCGATTGTGAGT...GCTAG|GCG 2 1 31.5
179146729 GT-AG 0 0.0014320823937123 50 rna-XM_008605842.1 32077028 5 1159098 1159147 Saprolegnia diclina 112098 CAG|GTAGCTCTTG...AGCTCTCTATCT/ATGATTTTGAGC...CTCAG|GGG 0 1 39.194
179146730 GT-AG 0 0.0108044707688984 43 rna-XM_008605842.1 32077028 6 1159325 1159367 Saprolegnia diclina 112098 TCG|GTATGCACCG...TGTCCCTTCTCT/CTCCGCTTCACT...TATAG|AGC 0 1 43.765
179146731 GT-AG 0 1.000000099473604e-05 45 rna-XM_008605842.1 32077028 7 1159419 1159463 Saprolegnia diclina 112098 CTG|GTTGGTCCAG...AACACCGCAAAC/ACACCGCAAACA...TGTAG|GTG 0 1 45.081
179146732 GT-AG 0 1.000000099473604e-05 47 rna-XM_008605842.1 32077028 8 1159614 1159660 Saprolegnia diclina 112098 CAT|GTAGATGCGT...GTGAGGGTGACG/GTGAGGGTGACG...CGTAG|GTG 0 1 48.954
179146733 GT-AG 0 0.003153473252569 50 rna-XM_008605842.1 32077028 9 1161308 1161357 Saprolegnia diclina 112098 GCC|GTACACAGCT...TACGTCTTGTAT/ATCAAGTTGATA...GGTAG|GTG 0 1 91.479

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]);