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 = 37928585

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id ▼ dinucleotide_pair is_minor score length transcript_id ordinal_index start end taxonomy_id scored_motifs phase in_cds relative_position
209469913 GT-AG 0 1.034967261316584e-05 284 rna-XM_017556488.1 37928585 1 42222978 42223261 Vigna angularis 3914 ACT|GTAGGATAAA...CATGCATTGACT/ATTATATTCATG...TGTAG|GTA 0 1 54.288
209469914 GT-AG 0 1.000000099473604e-05 146 rna-XM_017556488.1 37928585 2 42222707 42222852 Vigna angularis 3914 TTG|GTGAGTGATT...CCATTCTTATTT/TCCATTCTTATT...ATTAG|GGT 2 1 57.972
209469915 GT-AG 0 3.304057032743987e-05 789 rna-XM_017556488.1 37928585 3 42221833 42222621 Vigna angularis 3914 AAG|GTTTGTATCA...TTTTTCTTGTCA/TAATTATTGATC...ATCAG|GGA 0 1 60.477
209469916 GT-AG 0 1.000000099473604e-05 111 rna-XM_017556488.1 37928585 4 42221413 42221523 Vigna angularis 3914 AAT|GTGAGTCTCA...AAATTCATAGCA/AATATCTTCATC...CCTAG|ACT 0 1 69.584
209469917 GT-AG 0 1.000000099473604e-05 137 rna-XM_017556488.1 37928585 5 42221008 42221144 Vigna angularis 3914 GAG|GTAAATAGAT...GTTTCGATAATG/CAATAACTCATT...TTCAG|GGT 1 1 77.483
209469918 GT-AG 0 0.0053873909612824 83 rna-XM_017556488.1 37928585 6 42220801 42220883 Vigna angularis 3914 ACA|GTATGTTACT...TTTGTCATCACT/TTTGTCATCACT...GACAG|GTA 2 1 81.138
209469919 GT-AG 0 0.0018398949685545 1579 rna-XM_017556488.1 37928585 7 42218861 42220439 Vigna angularis 3914 GAG|GTATTATTTT...TGCTACTTAAAA/CAGGAGTTTACC...ATTAG|GTT 0 1 91.777

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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]);