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)

7 rows where transcript_id = 21930959

✎ View and edit SQL

This data as json, CSV (advanced)

Suggested facets: score, phase

id ▼ dinucleotide_pair is_minor score length transcript_id ordinal_index start end taxonomy_id scored_motifs phase in_cds relative_position
118866641 GT-AG 0 1.000000099473604e-05 3681 rna-XM_035011602.1 21930959 1 1251296 1254976 Mirounga leonina 9715 ATG|GTAAGGCAGC...ACTTTCTTCCTC/TCTATGTCCACT...TTCAG|GCC 1 1 4.812
118866642 GT-AG 0 1.000000099473604e-05 757 rna-XM_035011602.1 21930959 2 1250182 1250938 Mirounga leonina 9715 AAC|GTGAGTAACT...CTTGTCTTCACT/CTTGTCTTCACT...TGCAG|TCT 1 1 36.045
118866643 GT-AG 0 2.829487899664094e-05 41074 rna-XM_035011602.1 21930959 3 1208826 1249899 Mirounga leonina 9715 AAG|GTAAGCAACC...GGGCCCTTGACT/CAACTGTTCACT...TGCAG|ATT 1 1 60.717
118866644 GT-AG 0 1.000000099473604e-05 533 rna-XM_035011602.1 21930959 4 1208230 1208762 Mirounga leonina 9715 AAG|GTGAGTTTCA...TAGTTTTTGGCT/AGGCCTCTGAGC...CATAG|CAA 1 1 66.229
118866645 GT-AG 0 1.000000099473604e-05 4421 rna-XM_035011602.1 21930959 5 1203731 1208151 Mirounga leonina 9715 CAG|GTAAGGAAAT...TTTGTCTTGTTT/TCTTGTTTCACC...CCTAG|GAA 1 1 73.053
118866646 GT-AG 0 1.000000099473604e-05 2190 rna-XM_035011602.1 21930959 6 1201436 1203625 Mirounga leonina 9715 AAG|GTGAGTGATG...TCCTCCTTCTTT/TGACTTCTGACT...TCTAG|AGC 1 1 82.24
118866647 GT-AG 0 1.000000099473604e-05 431 rna-XM_035011602.1 21930959 7 1200983 1201413 Mirounga leonina 9715 CAG|GTAAGACTGC...GCCATTTTCACA/GCCATTTTCACA...CCCAG|ACT 2 1 84.164

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]);