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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)

11 rows where transcript_id = 9114897

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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
49389831 GT-AG 0 1.000000099473604e-05 1005 rna-gnl|WGS:VYZG|COLPIC_R00030_mrna 9114897 1 2784473 2785477 Columbina picui 115618 AAG|GTAAGGCAGG...GCGCCCTCAGCC/GGCGCCCTCAGC...CCCAG|CTC 2 1 16.47
49389832 GT-AG 0 1.000000099473604e-05 11671 rna-gnl|WGS:VYZG|COLPIC_R00030_mrna 9114897 2 2772644 2784314 Columbina picui 115618 ATG|GTGAGCTCCG...TTTTTCTTTCCC/TGAAAGCTGAGG...TGTAG|ACA 1 1 25.351
49389833 GT-AG 0 1.000000099473604e-05 61328 rna-gnl|WGS:VYZG|COLPIC_R00030_mrna 9114897 3 2711154 2772481 Columbina picui 115618 CAG|GTAAGGCTGC...CTAGCTTTCATT/CTAGCTTTCATT...CCCAG|CCA 1 1 34.458
49389834 GT-AG 0 1.000000099473604e-05 583 rna-gnl|WGS:VYZG|COLPIC_R00030_mrna 9114897 4 2710397 2710979 Columbina picui 115618 ATG|GTGAGTGTGG...CTATTTTTATTT/TCTATTTTTATT...CCCAG|AGC 1 1 44.238
49389835 GT-AG 0 1.000000099473604e-05 10453 rna-gnl|WGS:VYZG|COLPIC_R00030_mrna 9114897 5 2699772 2710224 Columbina picui 115618 AGG|GTAAGTGAGG...GTTTTTTTCTCT/ATTGGGCTTATA...AATAG|GTT 2 1 53.907
49389836 GT-AG 0 0.0014655008890047 8610 rna-gnl|WGS:VYZG|COLPIC_R00030_mrna 9114897 6 2691114 2699723 Columbina picui 115618 ACA|GTAGGTATTC...CTCTTCTTATTT/TCTCTTCTTATT...TCCAG|TTA 2 1 56.605
49389837 GT-AG 0 1.000000099473604e-05 2360 rna-gnl|WGS:VYZG|COLPIC_R00030_mrna 9114897 7 2688660 2691019 Columbina picui 115618 AAA|GTGCGTGAGT...GTCATTTTAATT/GTCATTTTAATT...TGCAG|GTA 0 1 61.889
49389838 GT-AG 0 1.000000099473604e-05 1115 rna-gnl|WGS:VYZG|COLPIC_R00030_mrna 9114897 8 2687438 2688552 Columbina picui 115618 CCT|GTGAGTTACA...GCTCCCTCCATC/AGTGGTGTGACT...CTCAG|GTG 2 1 67.903
49389839 GT-AG 0 1.000000099473604e-05 12500 rna-gnl|WGS:VYZG|COLPIC_R00030_mrna 9114897 9 2674823 2687322 Columbina picui 115618 CCG|GTAGGTCTGC...GTCTCCTCTGCT/GTGCTGCTGACT...CCCAG|GAC 0 1 74.368
49389840 GT-AG 0 1.000000099473604e-05 992 rna-gnl|WGS:VYZG|COLPIC_R00030_mrna 9114897 10 2673685 2674676 Columbina picui 115618 TAA|GTAAGTGGAG...CACACCTCAGCT/CCCGCTCTCACC...TGCAG|CCA 2 1 82.574
49389841 GT-AG 0 1.000000099473604e-05 72 rna-gnl|WGS:VYZG|COLPIC_R00030_mrna 9114897 11 2673466 2673537 Columbina picui 115618 CAA|GTAAGTGTGA...CACTCCTCAATG/CCACTCCTCAAT...CACAG|GTC 2 1 90.838

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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 24.843ms · Data license: ODbL · Data source: Larue & Roy, 2023 · About: Minor Intron Database (WtMTA)