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 = 9887101

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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
54167138 GT-AG 0 1.000000099473604e-05 575 rna-XM_039338497.1 9887101 1 4409741 4410315 Crotalus tigris 88082 AAG|GTATGGAAAA...TCTTCTATAAAA/CTGAGATTAATT...TCTAG|AAC 1 1 6.448
54167139 GT-AG 0 0.000262226626358 4340 rna-XM_039338497.1 9887101 2 4410461 4414800 Crotalus tigris 88082 GGA|GTAAGTATTC...ATTTCATTAATA/TTAATACTAACT...TTTAG|ATT 2 1 14.372
54167140 GT-AG 0 0.0005623379468035 1139 rna-XM_039338497.1 9887101 3 4415010 4416148 Crotalus tigris 88082 CAC|GTAAGCCATC...GTTTTTTTAATC/GTTTTTTTAATC...TAAAG|CCG 1 1 25.792
54167141 GT-AG 0 1.000000099473604e-05 567 rna-XM_039338497.1 9887101 4 4416294 4416860 Crotalus tigris 88082 ATT|GTAAGTAGAT...GTTGTTTTTCTG/GAAATAATAATA...TCCAG|CAT 2 1 33.716
54167142 GT-AG 0 1.003628291281465e-05 1328 rna-XM_039338497.1 9887101 5 4417076 4418403 Crotalus tigris 88082 ACA|GTAAGTCCAA...TTTTTCTTTTCC/AAGAGTTTTATT...ATTAG|CAT 1 1 45.464
54167143 GT-AG 0 0.0009651984607712 798 rna-XM_039338497.1 9887101 6 4418577 4419374 Crotalus tigris 88082 AAG|GTAACATTCA...GTCTCCTCAAAT/TGTCTCCTCAAA...GGCAG|ACT 0 1 54.918
54167144 GT-AG 0 1.000000099473604e-05 755 rna-XM_039338497.1 9887101 7 4419761 4420515 Crotalus tigris 88082 TGG|GTAAGTATAT...TTTATCATGATA/CAAGTATTTATC...TTCAG|CTG 2 1 76.011
54167145 GT-AG 0 1.000000099473604e-05 300 rna-XM_039338497.1 9887101 8 4420785 4421084 Crotalus tigris 88082 CAG|GTGAGAATGT...GATCATTTAACC/TCTGTTTTTATA...TTCAG|ACA 1 1 90.71

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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]);