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 = 28837493

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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
160841210 GT-AG 0 1.000000099473604e-05 504 rna-XM_011027982.1 28837493 1 8025412 8025915 Populus euphratica 75702 CAG|GTTAGCCTCC...TCGAGTTTAATC/TCGAGTTTAATC...GTTAG|CAG 1 1 9.221
160841211 GT-AG 0 0.0002734606232054 455 rna-XM_011027982.1 28837493 2 8026206 8026660 Populus euphratica 75702 AAG|GTAACTGGAT...TACTCCTTGAAG/GATTCACTTACT...ATTAG|GCA 0 1 20.181
160841212 GT-AG 0 1.000000099473604e-05 203 rna-XM_011027982.1 28837493 3 8026902 8027104 Populus euphratica 75702 ATG|GTTAGAAATT...TCAGTTTTACCA/TTCAGTTTTACC...AACAG|ACC 1 1 29.289
160841213 GT-AG 0 1.4304843046906604e-05 106 rna-XM_011027982.1 28837493 4 8027444 8027549 Populus euphratica 75702 AAG|GTGCACTGAT...TCTACTTTACTT/AAAGTTTTCATG...TTCAG|CGG 1 1 42.101
160841214 GT-AG 0 1.000000099473604e-05 86 rna-XM_011027982.1 28837493 5 8027636 8027721 Populus euphratica 75702 CAA|GTAAAACACA...TGACCCTTAGAG/AAATTACTAAAA...TGCAG|GAT 0 1 45.351
160841215 GT-AG 0 0.0003112859044324 118 rna-XM_011027982.1 28837493 6 8027830 8027947 Populus euphratica 75702 CAA|GTACTAATGA...CTTCCCTTAAAA/GAATATTTCAAT...AATAG|GCA 0 1 49.433
160841216 GT-AG 0 0.0005512912208799 97 rna-XM_011027982.1 28837493 7 8028253 8028349 Populus euphratica 75702 CTG|GTATGATTTC...TACACCTGAACG/ATTCTGCTCATA...TACAG|GCT 2 1 60.96
160841217 GT-AG 0 1.000000099473604e-05 88 rna-XM_011027982.1 28837493 8 8028614 8028701 Populus euphratica 75702 GAG|GTAAAGCTCG...CACTTTTTATCT/TCACTTTTTATC...TCCAG|AGG 2 1 70.937

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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]);