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 = 14424070

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Suggested facets: phase, in_cds

id ▼ dinucleotide_pair is_minor score length transcript_id ordinal_index start end taxonomy_id scored_motifs phase in_cds relative_position
77102089 GT-AG 0 0.0003313157922701 711 rna-XM_006412695.2 14424070 2 4272612 4273322 Eutrema salsugineum 72664 CAG|GTATGTCCTA...CCCTTTTTACCC/CATTGTGTAATT...TTTAG|AGG 1 1 39.565
77102090 GT-AG 0 0.0107396477101706 119 rna-XM_006412695.2 14424070 3 4272313 4272431 Eutrema salsugineum 72664 GAG|GTAACCAGCA...TTATTTTTATCT/TTTATTTTTATC...CTTAG|GGT 1 1 43.6
77102091 GT-AG 0 2.6080261901770532e-05 90 rna-XM_006412695.2 14424070 4 4272127 4272216 Eutrema salsugineum 72664 CAG|GTATGGCTAG...TATTCTGTAATT/AATTTTGTCATT...TTTAG|AAG 1 1 45.752
77102092 GT-AG 0 0.0011122989428222 121 rna-XM_006412695.2 14424070 5 4271882 4272002 Eutrema salsugineum 72664 CAG|GTATATGCTT...ATTTCTTTACTT/CTGTCTCTCATT...TTCAG|TAA 2 1 48.532
77102093 GT-AG 0 1.000000099473604e-05 77 rna-XM_006412695.2 14424070 6 4271672 4271748 Eutrema salsugineum 72664 CAG|GTTAGTTTTG...GATGCTTTGAGT/GTGAAACTCATC...TTCAG|ATG 0 1 51.513
77102094 GT-AG 0 0.0003710141846381 94 rna-XM_006412695.2 14424070 7 4269814 4269907 Eutrema salsugineum 72664 TGG|GTATGATATC...TCTTCCATAGTG/TAGTGTCTGAGA...AACAG|GTG 0 1 91.056
77114420 GT-AG 0 2.105999297718789e-05 352 rna-XM_006412695.2 14424070 1 4274731 4275082 Eutrema salsugineum 72664 GTG|GTTCGTTTGC...GTTGTTTAAACT/GATAATTTGATT...TGCAG|ACG   0 10.558

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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]);