GgaINT0125975 @ galGal3
Intron Retention
Gene
ENSGALG00000001275 | PDCL
Description
NA
Coordinates
chr17:9484480-9485807:-
Coord C1 exon
chr17:9485626-9485807
Coord A exon
chr17:9485032-9485625
Coord C2 exon
chr17:9484480-9485031
Length
594 bp
Sequences
Splice sites
5' ss Seq
AAGGTAACA
5' ss Score
8.92
3' ss Seq
ATCTTTCTATGTATTTTTAGATG
3' ss Score
9.44
Exon sequences
Seq C1 exon
GTCCAAAAGGAGTCATTAATGACTGGCGAAGGTTTAAACAACTGGAGACAGAACAGAGACAGGAGCAGCGCAGAGAAATGGAACGCCTCATAAAGAAGTTGTCTATGACATGTAGATCTCACTTAGATGAGGAGACTGATAAGCAGAAACAGAAAGAGCTTCAGGAAAAAATCAATGGAAAG
Seq A exon
GTAACATGAAACAAAGGAATTGCCATTTAAATATTGGATGGTTTTTGTTTCATTATTTGTGTGTGTGGAGCAGATAGGAATCCTTCTCTGGTCAGTAGGTAGGTTTAACAAAGCAGGCGAATAGACACAAAATACATGAACTCCTGATGATTTCATTTCTGCAGACAAGGTAATGTACTTGTTTTGTCAAAGAAATGTTTGCTTAAAAAGACATTAAAAAAGCTGGTGAAAGAGGAGCAATCTGAGGTCAGGCACAGTACCCAAATCAGTGCTCAGAGCTTAGTGAAAGCACGTAGCTACCATTAACCTGAATTAAAGTGGGATCGTAGAGCAGCCACTTGAGTTATTAGTGCAGCATGTGGGAACTAGCAAACCCAAGGCTGAAATGACTGTTCCCACTGGACACAGTTTCTAATTATATCAAAATGGAGTGTAATACAGCAGGTGCTTGAGCCTTCGTGGGGTGCACTTGCCTGTTATTAAAGATGAGTGACCCACATTAATCCTCTTGATTTAAATTAATTATGTAAGTGACCCATATAGTGATGAAGGTTGTCTTTTTTCTCTGTCATGTATCTTTCTATGTATTTTTAG
Seq C2 exon
ATGACATTACAAGAATATAACATGATTCACAATGATGAAGATGATGAGGAATTTTTACAACGGTACAGGAAGCAGCGAATGGAGGAAATGAGACAGCAGCTGTACAGTGGGCAGCAATTTAAACAGGTTTTTGAGATTACCAGCGGAGAAGCGTTTTTGGACACGGTTGATAAAGAGCATAAGAGCACTCTGATCATGATCCATATTTATGAAGATGACATCCCTGGTGCTGAATCCCTGCATGGCTGTATGATCTGTCTGGCTGCTGAGTATCCAACAGTTAAATTTTGCAAAGTAAAGAGTTCGCTCATTGGTGCCAGCGCTCGCTTTACCAATAATGCTCTGCCAGCTTTGCTGGTCTATAAGGCAGGTGAGCTCATTGGCAATTTTGTGCGGATCACTGACCAGCTCGGAGAAGATTTTTTTGCTGTAGACCTGGAGGCTTTTTTGCAGGAGTGTGGTCTGCTTCCAGAAAAAGACCTAGTGCTCCTGACTTCTATACATAATCCATCTGCGTGTTACAGTGAAGACAGTGACCTGGAAATAGACTGA
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000001275:ENSGALT00000001946:3
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.689 A=NA C2=0.082
Domain overlap (PFAM):
C1:
PF119453=WASH_WAHD=PD(48.6=88.5),PF0211411=Phosducin=FE(22.5=100)
A:
NA
C2:
PF0211411=Phosducin=PD(67.4=97.8)
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:
GCAGAGAAATGGAACGCCTCA
R:
TCAGCACCAGGGATGTCATCT
Band lengths:
346-940
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]