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 = 38062764

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Suggested facets: score, length, 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
210095911 GT-AG 0 1.000000099473604e-05 95 rna-XM_034851745.1 38062764 2 1328499 1328593 Vitis riparia 96939 GAG|GTGCATTTAT...ATTCTTTTACTA/GATTTCCTAATT...TTTAG|GAG 0 1 76.796
210095912 GT-AG 0 0.0003134933210396 4719 rna-XM_034851745.1 38062764 3 1328675 1333393 Vitis riparia 96939 CAG|GTATGATGCT...GTTTCTTTATTA/TCTTTATTAATC...AATAG|ATC 0 1 78.736
210095913 GT-AG 0 0.5786974482800388 639 rna-XM_034851745.1 38062764 4 1333547 1334185 Vitis riparia 96939 TTG|GTACTCTTTA...TTTGTCTTGATT/TTGATTTTTATT...TTCAG|ACT 0 1 82.399
210095914 GT-AG 0 1.000000099473604e-05 95 rna-XM_034851745.1 38062764 5 1334350 1334444 Vitis riparia 96939 CAG|GTAATATCTT...TTTTCATTACTC/CAAATTTTCATT...TCTAG|GCA 2 1 86.327
210095915 GT-AG 0 5.104838003658113e-05 169 rna-XM_034851745.1 38062764 6 1334593 1334761 Vitis riparia 96939 AAG|GTAAATTCTA...AACACCTTGAAT/CCAAATCTAACT...TGCAG|GTT 0 1 89.871
210095916 GT-AG 0 1.000000099473604e-05 357 rna-XM_034851745.1 38062764 7 1334885 1335241 Vitis riparia 96939 AAG|GTGAGGTATC...CAGTCTTTTACA/CAGTCTTTTACA...TGCAG|GTT 0 1 92.816
210095917 GT-AG 0 1.3543948876056078e-05 617 rna-XM_034851745.1 38062764 8 1335330 1335946 Vitis riparia 96939 TAG|GTGTGTTTAC...TGATCTCTAGTT/TCTAGTTTGATG...TGCAG|GAG 1 1 94.923
210102083 GT-AG 0 2.3308709877287823e-05 948 rna-XM_034851745.1 38062764 1 1324189 1325136 Vitis riparia 96939 CAG|GTACATAATT...CATTTTTTCACT/CATTTTTTCACT...TGCAG|CCT   0 3.807

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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]);