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 = 30293544

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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
169297639 GT-AG 0 1.000000099473604e-05 109 rna-RIMITATOR_LOCUS258 30293544 1 51688562 51688670 Ranitomeya imitator 111125 CTG|GTAAGTGGCA...GATTCCTTTTCT/GCGGTGCTGATT...ATCAG|CGT 2 1 2.806
169297640 GG-TG 0 1.000000099473604e-05 456 rna-RIMITATOR_LOCUS258 30293544 2 51687921 51688376 Ranitomeya imitator 111125 CTT|GGAATGACCC...ATTACTTTATGC/AATTACTTTATG...AGTTG|ATA 1 1 13.187
169297641 GT-AG 0 1.000000099473604e-05 312 rna-RIMITATOR_LOCUS258 30293544 3 51687508 51687819 Ranitomeya imitator 111125 AAG|GTAAATAATG...TACACTTCAATC/ACTTCAATCATC...CCTAG|GTC 0 1 18.855
169297642 GT-AG 0 5.826803817311954e-05 87 rna-RIMITATOR_LOCUS258 30293544 4 51687308 51687394 Ranitomeya imitator 111125 GCC|GTAAGTATGG...CTCCTCTTCATG/CTCCTCTTCATG...CACAG|AAC 2 1 25.196
169297643 GT-AG 0 0.0126387503592658 99 rna-RIMITATOR_LOCUS258 30293544 5 51686818 51686916 Ranitomeya imitator 111125 ATG|GTATGCTCCT...CCTCTCTTTTCT/AGCACAGTAACC...GCTAG|GAC 0 1 47.138
169297644 AT-AG 0 1.000000099473604e-05 252 rna-RIMITATOR_LOCUS258 30293544 6 51686334 51686585 Ranitomeya imitator 111125 AAG|ATACAGGTAG...AGGACTCTAATT/ACCTGATTCATT...TGCAG|GTG 1 1 60.157
169297645 GT-AG 0 1.000000099473604e-05 586 rna-RIMITATOR_LOCUS258 30293544 7 51685580 51686165 Ranitomeya imitator 111125 AAG|GTAATTACTT...TTTTCCTGTGTT/AGACTTGTCAAT...TCAAG|GTG 1 1 69.585

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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]);