DreINT0006301 @ danRer10
Intron Retention
Gene
ENSDARG00000088825 | CDC42BPA
Description
CDC42 binding protein kinase alpha (DMPK-like) [Source:HGNC Symbol;Acc:HGNC:1737]
Coordinates
chr8:3830752-3832133:+
Coord C1 exon
chr8:3830752-3830856
Coord A exon
chr8:3830857-3831992
Coord C2 exon
chr8:3831993-3832133
Length
1136 bp
Sequences
Splice sites
5' ss Seq
GAGGTGCTT
5' ss Score
3.62
3' ss Seq
TGCCTGTGTGTGTTTCTCAGCAA
3' ss Score
8.27
Exon sequences
Seq C1 exon
CTGGGTGATCTGGAGAAGAAGCACGGCATGCTGGAGATGAACGCTCGCAGCCTGCAGCAGAAGCTGGAGACGGAGAGAGAGATGAAGCAGAGACTCATGGACGAG
Seq A exon
GTGCTTCACTTTATCAGCACTCAAAACTAGACATATGCCCACATTCAGTCATTTAATATGTCGTGATGATGAATATGCACAATATAGATCCTGTGGGCACTTCAAAATACCTTGAAGAATAACTATTTATTATCGAAAATCTCATGCACCAAGTTAATGATGTAGGAGCAGTTCAGGTGACCTATCAGCCTGAATAAACATACACTACCTGACAAAAGTCTTGTCGTTGATCCCAGTTTTAAAAGCAGCAAATAATAACTTGACTTCTAGTTAATCATTTGGAAAAGTGGTAGAAGTAGATTTTTCTGATGAATCATCTGTTGAACTGCAGCACAATCATCACTAATACTGCAGAAGACCTACGGGAACCCACATGTAGTTAAGATTCTCACAGTAATCAGTCAAGTTTGGTGAAGGAAAAGTCATGGTTTGTGGTTATATTCAGTATGGGGGTGTGCAAGAGATCTGCAGAGTGGATTGTAACATCAACAGCCTGAGATATCAAGACATTTGTGCTGCCCGTTACATTACAAACCACAGGAGAGGGCAAATTCTCCAGCAGGATAGCGCTCCTTCTCATGCCTTCGACATCAAAGCTCCTGAAAGTAAAGAAGGTCAAGGTACTCCAGGATTGGCCAGCCCAGTCACCAAACATGAACATTGTTGAGCATGTCTGGGGTAAAATGAAGGAGGAGGCAATTAAAGATGAATCCAAAGAATCTTGATGAACTCTGGGATTTTGAGTCATTGCAGAGATGTATGGATGCAGTCCTCCAAGCTCATGGAAGTCATACATAATATTCATTCTGTTTCAAATGCAGCATGACTTATTCTATACTGGACATTATCTCTGTTCAATGACAAGACTTTTGTCTAAGCAAAGTCAGACTTTACTGTCCTAATTAAATAATTTTAAATCAAGACATGATCATATTTTATTGTGGTAAAATAAGCGTAATCTAGAGGCCTTTGCCTTTCGTAAAAGCCACTTCTGAGACCAAATGATCAACTAGAAGTCGAGTTATTATTTGTTGTTCCTAAAACTTGGGATAGGCGACAAGACTTTTGTCAGGTGGTGTATGGTTTTACGACAGAACTTTGTATTCACAGTGTGTGTGCCTGTGTGTGTTTCTCAG
Seq C2 exon
CAAGCTAAACTGCAGCAGCAGCTGGACATGCAGAAGAGCCACATCTTCAGACTGACTCAAGGACTGCAGGATGCGCTGGACCAGACCGACCTGCTGAAGACCGAGCGCACAGACCTGGAGTACCAGCTGGAAAACATACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000088825:ENSDART00000122454:17
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=1.000 A=NA C2=0.106
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CTGGGTGATCTGGAGAAGAAGC
R:
CTGTATGTTTTCCAGCTGGTACTCC
Band lengths:
246-1382
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]