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 = 8980570

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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
48348578 GT-AG 0 1.000000099473604e-05 510 rna-XM_010203710.1 8980570 1 23372 23881 Colius striatus 57412 CAG|GTACAGCAGC...CTTCCTTTCTCT/CATGCAGTAATG...TGCAG|AGC 0 1 5.346
48348579 GT-AG 0 1.000000099473604e-05 8520 rna-XM_010203710.1 8980570 2 24016 32535 Colius striatus 57412 AGG|GTAAGCCCAG...ACTCCCTTGCCT/AGATCCCTGACA...CGCAG|GAT 2 1 11.742
48348580 GT-AG 0 1.000000099473604e-05 1791 rna-XM_010203710.1 8980570 3 32634 34424 Colius striatus 57412 CCA|GTAAGTCACA...ACTTCCTCTTTG/AGAGAATTCAGC...CTCAG|GTA 1 1 16.42
48348581 GT-AG 0 1.000000099473604e-05 1712 rna-XM_010203710.1 8980570 4 34585 36296 Colius striatus 57412 CAT|GTGAGTCTGC...CACTCCTGGCCT/CCTGCAATCAGT...TTCAG|CCC 2 1 24.057
48348582 GT-AG 0 1.000000099473604e-05 521 rna-XM_010203710.1 8980570 5 36589 37109 Colius striatus 57412 CAG|GTGAGCCCTG...TGAGCTTTGATG/GATGAGTTCATT...ACCAG|GTC 0 1 37.995
48348583 GT-AG 0 1.000000099473604e-05 1606 rna-XM_010203710.1 8980570 6 37203 38808 Colius striatus 57412 ATT|GTGAGTGGCC...CCCGAGGTAACT/AGGTAACTGATG...CTTAG|GTG 0 1 42.434
48348584 GT-AG 0 1.000000099473604e-05 1490 rna-XM_010203710.1 8980570 7 39650 41139 Colius striatus 57412 CGG|GTGAGCCTGG...CTGCCCTGCACT/TCCTGGCTGACA...TTCAG|GTC 1 1 82.578

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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]);