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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)

16 rows where transcript_id = 9114901

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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
49389860 GT-AG 0 2.2493286319278016e-05 11428 rna-gnl|WGS:VYZG|COLPIC_R04149_mrna 9114901 1 966814 978241 Columbina picui 115618 CCG|GTAAGTTGTT...ATGGCTTTATTT/AAAATGCTCATA...TACAG|GGT 2 1 5.948
49389861 GT-AG 0 1.000000099473604e-05 16373 rna-gnl|WGS:VYZG|COLPIC_R04149_mrna 9114901 2 978316 994688 Columbina picui 115618 CTG|GTGAGTATCT...AATTTTCTAACT/AATTTTCTAACT...TACAG|TGT 1 1 10.306
49389862 GT-AG 0 1.000000099473604e-05 1369 rna-gnl|WGS:VYZG|COLPIC_R04149_mrna 9114901 3 994807 996175 Columbina picui 115618 CAG|GTAAATGACT...CATATCTTAAAT/CATGTCTTCATA...AACAG|AGG 2 1 17.256
49389863 GT-AG 0 1.000000099473604e-05 1389 rna-gnl|WGS:VYZG|COLPIC_R04149_mrna 9114901 4 996272 997660 Columbina picui 115618 AGG|GTGAGTACTG...TCCACCTTATCT/TGTGGTTTCATT...CTCAG|GCC 2 1 22.909
49389864 GT-AG 0 1.000000099473604e-05 191 rna-gnl|WGS:VYZG|COLPIC_R04149_mrna 9114901 5 997753 997943 Columbina picui 115618 CAG|GTGAGTATAA...CCTGTTTTAAAA/CCTGTTTTAAAA...TGCAG|AGA 1 1 28.327
49389865 GT-AG 0 0.000114289700706 1320 rna-gnl|WGS:VYZG|COLPIC_R04149_mrna 9114901 6 998002 999321 Columbina picui 115618 TAG|GTACGTATTC...TGTTTCGTACCT/CCTGCTGTGACT...CACAG|CTG 2 1 31.743
49389866 GT-AG 0 1.000000099473604e-05 1004 rna-gnl|WGS:VYZG|COLPIC_R04149_mrna 9114901 7 999416 1000419 Columbina picui 115618 AAG|GTGATTGCAA...TGTCTCTTACAT/CATTACCTCACT...TTCAG|GGA 0 1 37.279
49389867 GT-AG 0 1.000000099473604e-05 1176 rna-gnl|WGS:VYZG|COLPIC_R04149_mrna 9114901 8 1000474 1001649 Columbina picui 115618 GAT|GTAAGTGTGA...TATCCCTTGGCT/GTGATTTTCATA...TTCAG|GGG 0 1 40.459
49389868 GT-AG 0 1.000000099473604e-05 742 rna-gnl|WGS:VYZG|COLPIC_R04149_mrna 9114901 9 1001734 1002475 Columbina picui 115618 GAT|GTAAGTCCTC...GGATGTTTAAAA/TGGATGTTTAAA...TTCAG|AAA 0 1 45.406
49389869 GT-AG 0 2.7408594234752976e-05 1123 rna-gnl|WGS:VYZG|COLPIC_R04149_mrna 9114901 10 1002518 1003640 Columbina picui 115618 AAG|GTATGTGATT...TGTACCTGATTC/TTGTACCTGATT...TGCAG|CCT 0 1 47.88
49389870 GT-AG 0 1.000000099473604e-05 336 rna-gnl|WGS:VYZG|COLPIC_R04149_mrna 9114901 11 1003749 1004084 Columbina picui 115618 ACG|GTAAGTGGCA...TGTTCCGTACTA/TCCGTACTAAAA...CTCAG|GTG 0 1 54.24
49389871 GT-AG 0 1.000000099473604e-05 655 rna-gnl|WGS:VYZG|COLPIC_R04149_mrna 9114901 12 1004152 1004806 Columbina picui 115618 GAG|GTGAGACAAG...TTCCCTTTGGCT/TCTGTTCTGAGT...CTCAG|GCT 1 1 58.186
49389872 GT-AG 0 1.000000099473604e-05 843 rna-gnl|WGS:VYZG|COLPIC_R04149_mrna 9114901 13 1004978 1005820 Columbina picui 115618 GCG|GTCAGTAGCA...CTTTTCTGGATT/TTTAAACTTACC...TCCAG|CCC 1 1 68.257
49389873 GT-AG 0 1.000000099473604e-05 248 rna-gnl|WGS:VYZG|COLPIC_R04149_mrna 9114901 14 1005873 1006120 Columbina picui 115618 CAA|GTGAGTACTC...TTTACCTTCTCG/CATGTATTTACC...ACTAG|GCA 2 1 71.319
49389874 GT-AG 0 0.0014107397013675 535 rna-gnl|WGS:VYZG|COLPIC_R04149_mrna 9114901 15 1006182 1006716 Columbina picui 115618 AAG|GTACCAATCA...CTGCCCTTTGCT/CAGGATCTAACC...TCTAG|AAA 0 1 74.912
49389875 GT-AG 0 1.000000099473604e-05 213 rna-gnl|WGS:VYZG|COLPIC_R04149_mrna 9114901 16 1006894 1007106 Columbina picui 115618 CTG|GTGAGTTGCA...TCTCTCTTCCAC/CTCTCTTCCACA...TGCAG|ATG 0 1 85.336

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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 29.09ms · Data license: ODbL · Data source: Larue & Roy, 2023 · About: Minor Intron Database (WtMTA)