GgaINT0118287 @ galGal4
Intron Retention
Gene
ENSGALG00000016323 | PDK3
Description
[Source:RefSeq peptide;Acc:NP_001006259]
Coordinates
chr1:117543526-117545096:-
Coord C1 exon
chr1:117544912-117545096
Coord A exon
chr1:117543616-117544911
Coord C2 exon
chr1:117543526-117543615
Length
1296 bp
Sequences
Splice sites
5' ss Seq
ACAGTAAGT
5' ss Score
9.49
3' ss Seq
CCATTTGTTTTTCCTTACAGCGC
3' ss Score
11.93
Exon sequences
Seq C1 exon
CTTTTTAGACGTTTTAATTAAAGTCAGGAACAGACACAATGATGTGGTTCCAACCATGGCGCAAGGGGTGATTGAATACAAGGAAAAGTATGGCTTTGACCCATTTGTTAGCAGTAACATCCAGTATTTTCTAGATAGATTCTACACCAACCGCATCTCTTTCCGTATGCTCATTAACCAACACA
Seq A exon
GTAAGTAATTGCTTATTTCATCTTCAAGAGCTTTTGTTATTGCTTGTAATCCAGAAGCCGTATTTTTTGTTTGAGTATTTTTCAAACGCGTGACTAATTCTTAATGTTCTGTGCTAATGATGGTAAAGTTGTACTGACAACTGATTAACTTGGTACTTCACAGCTATCCGAAATGAATCCAAAGCACCAGTATGCTTTCTTCCAGAACTGGGGGGAGTTGTCACTGTGGCTGTCAGTTTTCAATCTTGTTGGCACAGACAGCCTGCGTAGTGATGCATGGTATTTTTAGATCTTTCTGCTCAGAAGTCTGTTAACGTCGTTTGTAGTGTTGGTGTTTATAATCAAATAGGAGGATGCAGGTTTTGAATAGGTTGTGCCCTGCATGTATTCTTTTTTAGTTTTTCATCAAGTTATGTAAACTTTCTTGCCTTTTAACTGATACTAATTGAGTATTATCTTATTATTATATTTTATTAGTATTATTTTATTTATTAGTATTATTATTATATCTTTATTACTATTATCTTTATTTTATTATATTTATTTTATTTTTTATTTTATTATATCTTTATTACTATTATTTATTAGTATTATTATTATCTATTATTGAGCATATCTTGTACCTTTTAGCTCTAAGAGCTTCTCTGTCTGCCCGGTATTCAGCTTTTATGGCCTATTAACAACGTATGAGTGCACCACAGATGATGGGGAGCAAATGCAGAGTAGTGCATTGTGAGGTTTAATACATCTTGTGTGTCTTTCCAGTAACCTTCCATGTGACTAGCATGTGCCATGCTGTGTGTGTACAGTTAACTTTCATGTGTCAGAGCGTACTGTGAGATAACTCTGCATTTATGTTGTGTTTCATTATTGATGCTGTTTATTACGGCGTGGCTCTGCAAGGAGCATTGTGCCTGTATATTACTTCACCATTTCTGGAATAGGAAAAGCTTTCATATTTTTTGCTTACTTCATACTGCCTCTGGTTCTTTATCAGAACTGCTTAATTTGCCAAAGCAGCAGAAAGTCACTTCTGCAAAAAAGCTTAAAATCTTTCTGCCTCATTGAGAGTTCAGCTCTCAGTGAAGGGTTTGGTGAGTGCCAGACTTTGCGTGAAAGTGGGAGTGGAGAATCATGCTGCTGAGAGTTGTCTTCAGCAGGGTTTCTGCCAATTTGCCGCAGTGTCTTTACATAGAACATCGTGCTATCCAGTAAGTTTGAGGTATCATCAGAGTTTGACTTGCTATGCTGTCTCAAGTGTAAAGGCAAGTTATTACCATTTGTTTTTCCTTACAG
Seq C2 exon
CGCTTCTTTTTGGAGGAGACATTAATCCTGCCCATCCCAAACATATTGGAAGTATTGATCCTAATTGTAATGTGGCAGAGGTGGTTAAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000016323:ENSGALT00000026334:4
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF104364=BCDHK_Adom3=FE(37.6=100)
A:
NA
C2:
PF104364=BCDHK_Adom3=PD(12.1=64.5)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
ACGTTTTAATTAAAGTCAGGAACAGA
R:
ACCACCTCTGCCACATTACAA
Band lengths:
262-1558
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]