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 = 4024567

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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
20805377 GT-AG 0 1.000000099473604e-05 2533 rna-XM_010304264.1 4024567 1 1566 4098 Balearica regulorum 925459 GAG|GTAATTACGA...TCCATTTTACCA/CTCTTTTTCACA...CTTAG|ATT 0 1 7.287
20805378 GT-AG 0 0.0025321136775033 2377 rna-XM_010304264.1 4024567 2 4219 6595 Balearica regulorum 925459 CAG|GTAACATTTT...TGAATTTTAATA/TGAATTTTAATA...GACAG|ACC 0 1 23.482
20805379 GT-AG 0 1.535137890438039e-05 1286 rna-XM_010304264.1 4024567 3 6683 7968 Balearica regulorum 925459 AAG|GTTTGTCTTT...TTTTCCAAATCT/GTTTTCCAAATC...TTCAG|ATT 0 1 35.223
20805380 GC-AG 0 1.000000099473604e-05 7579 rna-XM_010304264.1 4024567 4 8096 15674 Balearica regulorum 925459 ATG|GCAAGTATTT...TTTTTTTTTTTT/TTTTTTGTAAAC...TACAG|ATA 1 1 52.362
20805381 GT-AG 0 1.000000099473604e-05 1816 rna-XM_010304264.1 4024567 5 15803 17618 Balearica regulorum 925459 AAG|GTGAAGATAA...TTTTCCTTGATG/TTCTGTTTAATA...ACTAG|GAT 0 1 69.636
20805382 GT-AG 0 2.0729956929553773e-05 1514 rna-XM_010304264.1 4024567 6 17705 19218 Balearica regulorum 925459 GTG|GTAAGTATCC...ATATTTTTAATT/ATATTTTTAATT...TTCAG|CAC 2 1 81.242
20805383 GT-AG 0 1.000000099473604e-05 7246 rna-XM_010304264.1 4024567 7 19289 26534 Balearica regulorum 925459 TCG|GTAAGGTTAA...TGTTTTTTCATT/TGTTTTTTCATT...TTTAG|GCA 0 1 90.688
20805384 GT-AG 0 0.0466438457686658 1050 rna-XM_010304264.1 4024567 8 26575 27624 Balearica regulorum 925459 AAG|GTATGTTTTT...TCATTCTTGATG/TCATTCTTGATG...TTTAG|TTG 1 1 96.086

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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]);