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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)

12 rows where transcript_id = 2279618

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Suggested facets: dinucleotide_pair, score, length, phase

id ▼ dinucleotide_pair is_minor score length transcript_id ordinal_index start end taxonomy_id scored_motifs phase in_cds relative_position
12239935 GT-AG 0 3.3120111853472754e-05 101 rna-XM_027991493.1 2279618 2 2795472 2795572 Aphis gossypii 80765 TTG|GTAAATCTAA...AATTTTTTATTT/CAATTTTTTATT...TGTAG|ATC 0 1 5.774
12239936 GT-AG 0 0.0027031543436998 92 rna-XM_027991493.1 2279618 3 2795314 2795405 Aphis gossypii 80765 AAT|GTAAATTTCT...AAAATTTTAATT/AATTTATTAATT...TTCAG|ACA 0 1 9.059
12239937 GT-AG 0 4.907411039943707e-05 55 rna-XM_027991493.1 2279618 4 2795049 2795103 Aphis gossypii 80765 AAA|GTATGGTCAA...CTTGCATTTACA/CTTGCATTTACA...GTTAG|GTT 0 1 19.512
12239938 GC-AG 0 1.000000099473604e-05 60 rna-XM_027991493.1 2279618 5 2794857 2794916 Aphis gossypii 80765 AAG|GCATGTTGAT...AACTTTTTGAAA/AAAGAACTAACT...TTCAG|GAG 0 1 26.083
12239939 GT-AG 0 8.326790117584819e-05 71 rna-XM_027991493.1 2279618 6 2794650 2794720 Aphis gossypii 80765 TAG|GTTGTTTTTT...ATGTTCTTAATT/TAATTATTTATT...CAAAG|GTG 1 1 32.852
12239940 GT-AG 0 5.1159969754858266e-05 61 rna-XM_027991493.1 2279618 7 2794424 2794484 Aphis gossypii 80765 ACA|GTAAATATAT...ATGATCCTAACA/TATATATTTATA...TTCAG|TTG 1 1 41.065
12239941 GT-AG 0 1.000000099473604e-05 61 rna-XM_027991493.1 2279618 8 2794094 2794154 Aphis gossypii 80765 AAC|GTAAAAATAA...TATTATTTAATA/TTTAGTCTCACG...TTTAG|TAT 0 1 54.455
12239942 GT-AG 0 0.4093922898451471 58 rna-XM_027991493.1 2279618 9 2793839 2793896 Aphis gossypii 80765 AAA|GTATACATAC...TGATCTTTAAAT/GTTTATTTCAAT...TGTAG|ATT 2 1 64.261
12239943 GT-AG 0 2.228259093039285e-05 97 rna-XM_027991493.1 2279618 10 2793534 2793630 Aphis gossypii 80765 AAT|GTAAATATTA...GTATGGTTAATA/GTATGGTTAATA...TGTAG|ATT 0 1 74.614
12239944 GT-AG 0 1.000000099473604e-05 57 rna-XM_027991493.1 2279618 11 2793301 2793357 Aphis gossypii 80765 TGG|GTAAAATGAA...AGATTTTTGATT/AGATTTTTGATT...TTTAG|AAC 2 1 83.375
12239945 GT-AG 0 0.0001215438388396 94 rna-XM_027991493.1 2279618 12 2793111 2793204 Aphis gossypii 80765 ATG|GTAGATTAAA...AACACTTTAACA/AACACTTTAACA...TTCAG|GTT 2 1 88.153
12239946 GT-AG 0 1.000000099473604e-05 104 rna-XM_027991493.1 2279618 13 2792894 2792997 Aphis gossypii 80765 AAT|GTAAGTTGAA...ATAAACTTATTT/TATAAACTTATT...TTTAG|TTC 1 1 93.778

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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]);
Powered by Datasette · Queries took 27.557ms · Data license: ODbL · Data source: Larue & Roy, 2023 · About: Minor Intron Database (WtMTA)