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 = 38062826

✎ View and edit SQL

This data as json, CSV (advanced)

Suggested facets: score, in_cds

id ▼ dinucleotide_pair is_minor score length transcript_id ordinal_index start end taxonomy_id scored_motifs phase in_cds relative_position
210096542 GT-AG 0 1.000000099473604e-05 114 rna-XM_034831486.1 38062826 1 1277461 1277574 Vitis riparia 96939 AAG|GTTAGTAACG...TTTATTTTAGTT/TGGTAATTTATT...TTTAG|GTA 0 1 69.245
210096543 GT-AG 0 1.000000099473604e-05 94 rna-XM_034831486.1 38062826 2 1277310 1277403 Vitis riparia 96939 ATG|GTTCGTTACT...GGTTCCATACTT/TATAGTTTAATG...TATAG|GGA 0 1 70.981
210096544 GT-AG 0 0.0001312674274867 120 rna-XM_034831486.1 38062826 3 1277121 1277240 Vitis riparia 96939 ATG|GTATGAATGT...ACTTTCTTAAAG/TGTAGTTTAATA...TGTAG|GAA 0 1 73.082
210096545 GT-AG 0 0.0003816669815035 104 rna-XM_034831486.1 38062826 4 1276948 1277051 Vitis riparia 96939 ATG|GTATGTGATA...TTTTCATTAACA/TACATTTTCATT...TGCAG|GGA 0 1 75.183
210096546 GT-AG 0 1.000000099473604e-05 84 rna-XM_034831486.1 38062826 5 1276798 1276881 Vitis riparia 96939 CTG|GTAATGCATG...TTTTGCTTAATG/TTTTTGCTTAAT...TGTAG|GGA 0 1 77.192
210096547 GT-AG 0 1.0261856962522258e-05 289 rna-XM_034831486.1 38062826 6 1276440 1276728 Vitis riparia 96939 CTG|GTAATTTATA...ATATTCTTATGT/TATATTCTTATG...TGTAG|GGG 0 1 79.294
210096548 GT-AG 0 0.0001347153992619 75 rna-XM_034831486.1 38062826 7 1276296 1276370 Vitis riparia 96939 ATG|GTATTTGAAT...TATTGCTTAGCC/TTTGCTTTCATA...TGCAG|GAC 0 1 81.395
210102106 GT-AG 0 1.000000099473604e-05 1000 rna-XM_034831486.1 38062826 8 1275190 1276189 Vitis riparia 96939 GAG|GTGGTTTGTA...ATTTCATTATAA/CTTGGATTAACT...TACAG|GTG   0 84.622

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]);