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 = 9114841

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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
49389244 GT-AG 0 1.000000099473604e-05 85 rna-gnl|WGS:VYZG|COLPIC_R05521_mrna 9114841 1 534749 534833 Columbina picui 115618 GAG|GTGAGGCGCC...CCAGACTTCCCG/CGCCGGCTAACG...CGCAG|GTC 1 1 7.391
49389245 GT-AG 0 1.000000099473604e-05 61114 rna-gnl|WGS:VYZG|COLPIC_R05521_mrna 9114841 2 473567 534680 Columbina picui 115618 ATG|GTGAGTGACC...CTTCTGTTAATT/CTTCTGTTAATT...TCTAG|GAC 0 1 12.417
49389246 GT-AG 0 0.007639500572716 25852 rna-gnl|WGS:VYZG|COLPIC_R05521_mrna 9114841 3 447494 473345 Columbina picui 115618 ACG|GTATGTTGAA...GTTTTTTTAACC/GTTTTTTTAACC...TACAG|GAT 2 1 28.751
49389247 GT-AG 0 1.8630941185929983e-05 15636 rna-gnl|WGS:VYZG|COLPIC_R05521_mrna 9114841 4 431775 447410 Columbina picui 115618 GTT|GTAAGTTACT...AAATCAATAGTC/TCAATAGTCAAA...TTCAG|ATG 1 1 34.885
49389248 GT-AG 0 1.000000099473604e-05 121 rna-gnl|WGS:VYZG|COLPIC_R05521_mrna 9114841 5 431516 431636 Columbina picui 115618 CAG|GTAAGCACTG...TTTTTTTTAGGC/CAGTGTCTAATT...TTCAG|GAG 1 1 45.085
49389249 GT-AG 0 0.003800115198549 1339 rna-gnl|WGS:VYZG|COLPIC_R05521_mrna 9114841 6 430024 431362 Columbina picui 115618 TAG|GTAACTTATT...GTCTTGTTATCT/TGTCTTGTTATC...TACAG|GAA 1 1 56.393
49389250 GT-AG 0 1.000000099473604e-05 4575 rna-gnl|WGS:VYZG|COLPIC_R05521_mrna 9114841 7 425204 429778 Columbina picui 115618 AGA|GTCCAGGTAA...GTCTAATTGACA/TTGACATTCATT...CACAG|GTT 0 1 74.501

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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]);