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 = 13851127

✎ 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
73763491 GT-AG 0 1.000000099473604e-05 329 rna-XM_012974532.1 13851127 1 2302510 2302838 Erythranthe guttata 4155 CTC|GTGAGTATAT...TTTTTTTTAATT/TTTTTTTTAATT...TGAAG|AAT 1 1 13.363
73763492 GT-AG 0 3.3052403014541256e-05 501 rna-XM_012974532.1 13851127 2 2303117 2303617 Erythranthe guttata 4155 ACG|GTTCGCATCG...TATTTTTTTTTT/CAAATGTTAAAT...TGCAG|TCA 0 1 23.568
73763493 GT-AG 0 1.000000099473604e-05 185 rna-XM_012974532.1 13851127 3 2303856 2304040 Erythranthe guttata 4155 AAG|GTAACAGAAG...GTGATCTCAATG/TGTGATCTCAAT...GGCAG|ATC 1 1 32.305
73763494 GT-AG 0 0.0156398565849976 121 rna-XM_012974532.1 13851127 4 2304359 2304479 Erythranthe guttata 4155 ACA|GTATGATTTA...TTTTCCTTTTTT/CTTCATTTAACT...TGCAG|GAG 1 1 43.979
73763495 GT-AG 0 0.0019853811528285 106 rna-XM_012974532.1 13851127 5 2304566 2304671 Erythranthe guttata 4155 ACG|GTATATAATG...AATTTCTAAATA/AAATTTCTAAAT...CACAG|GAA 0 1 47.137
73763496 GC-AG 0 1.000000099473604e-05 85 rna-XM_012974532.1 13851127 6 2304783 2304867 Erythranthe guttata 4155 GAG|GCAAGACCTG...CTCTTCTTATCT/TCTTATCTGATC...TGCAG|GCA 0 1 51.211
73763497 GT-AG 0 1.000000099473604e-05 269 rna-XM_012974532.1 13851127 7 2305170 2305438 Erythranthe guttata 4155 CTG|GTAAGTTCTG...TGTACTTTTACA/TGTACTTTTACA...TGCAG|GCT 2 1 62.298
73763498 GT-AG 0 1.000000099473604e-05 93 rna-XM_012974532.1 13851127 8 2305706 2305798 Erythranthe guttata 4155 CAG|GTAAATGAAA...TTTTTTTTAAAT/TTTTTTTTAAAT...ATCAG|GGG 2 1 72.1

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]);