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)

8 rows where transcript_id = 13851106

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Suggested facets: score, phase, in_cds

id ▼ dinucleotide_pair is_minor score length transcript_id ordinal_index start end taxonomy_id scored_motifs phase in_cds relative_position
73763256 GT-AG 0 1.3388136959578987e-05 386 rna-XM_012974235.1 13851106 2 2129054 2129439 Erythranthe guttata 4155 ACT|GTAAGTGACT...TCAACCTTATTC/GTAGAACTGATA...TGTAG|GCA 0 1 20.024
73763257 GT-AG 0 15.281553924816505 78 rna-XM_012974235.1 13851106 3 2128227 2128304 Erythranthe guttata 4155 AAG|GTATCCATTC...TGGGTTTTAACC/TGGGTTTTAACC...CTCAG|GTT 2 1 42.612
73763258 GT-AG 0 1.000000099473604e-05 67 rna-XM_012974235.1 13851106 4 2127688 2127754 Erythranthe guttata 4155 AAG|GTAAGATAGA...ATGTCCTTAATA/TATGTCCTTAAT...AACAG|GTG 0 1 56.846
73763259 GT-AG 0 2.5296484622358397e-05 224 rna-XM_012974235.1 13851106 5 2127296 2127519 Erythranthe guttata 4155 ACT|GTGAGTTTAT...TTCTTTTTAATA/TTCTTTTTAATA...CACAG|GTT 0 1 61.912
73763260 GT-AG 0 0.0084440849825849 576 rna-XM_012974235.1 13851106 6 2126465 2127040 Erythranthe guttata 4155 AAG|GTATGCTCTC...TTAGTCATGATG/TAGTTAGTCATG...TGCAG|GTC 0 1 69.602
73763261 GT-AG 0 1.000000099473604e-05 365 rna-XM_012974235.1 13851106 7 2125977 2126341 Erythranthe guttata 4155 GAG|GTGAGTTTTC...TGCGTTTTAAAT/ATGATTCTGATT...TACAG|ACA 0 1 73.311
73763262 GT-AG 0 1.9057915336349367e-05 372 rna-XM_012974235.1 13851106 8 2125119 2125490 Erythranthe guttata 4155 CAG|GTAAATTACT...TTTTCCGTACTT/AATGTAGTAATC...CACAG|TTG 0 1 87.967
73767387 GT-AG 0 0.0295399873207202 589 rna-XM_012974235.1 13851106 1 2129729 2130317 Erythranthe guttata 4155 CAG|GTATTCCTTT...TGGATTTTATTT/TTGGATTTTATT...GCCAG|GTT   0 11.882

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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]);