BtaINT0035059 @ bosTau6
Intron Retention
Gene
ENSBTAG00000016456 | CDC42BPB
Description
CDC42 binding protein kinase beta (DMPK-like) [Source:HGNC Symbol;Acc:HGNC:1738]
Coordinates
chr21:69287595-69288998:-
Coord C1 exon
chr21:69288917-69288998
Coord A exon
chr21:69287812-69288916
Coord C2 exon
chr21:69287595-69287811
Length
1105 bp
Sequences
Splice sites
5' ss Seq
AGGGTACGT
5' ss Score
9.15
3' ss Seq
TCTTGTTTTCTGTCCTGAAGGTG
3' ss Score
8.9
Exon sequences
Seq C1 exon
AGATGAAGAGTTCTCTGTGAGCTCCGTCCTGGCTTCAGACGTCATACATGCCTCACGCCGAGATATTCCATGTATATTCAGG
Seq A exon
GTACGTTTTCTTCCTGGTTTTTCAACGTGTTTCATTAATCGTTAAAGAAGTGCATGTGGCTAAAATGAAAGGGTAACGTTACTGAGCATTTCCTAGTGTGGTAGCAAGGGGCCCACATGAAGGGACCTCCTGTTTCTCTAGACTGCTGGCCTCGGCTCATCCAGCCACAAGCCCCCCAGTGCCAGGCCTTCCAGCTCCATCCTCATCTGCAGTCTGTCCTGGCCCCTCCGTCCAGGGCACTGGACACTGAAGTGCCTCACGGGTTGGCTGTAGGGAAACGGGCCCTTCAGCCTCCCTCCCAGGACTCACTGGCCATTAACCTGAGCAAAGCAGGAAAGAAATCGGTAGATGCTGCTGTCAGCAGTCTTGTTGGCGGAGGTGGGGCGCACCCTGCTGGGCTGGTGGTGGGTGCTGTGGCTTCAGGAAGCTTCCAGAAGACTGAGTTCCCCCTCCACTGGGAATTTTCACAGCTACAGTAAAATCTGGTTGACCACAAAACCAAGACCACAGGTCATTTTCTGTTAAATCGCGTCTCTATTCAGAACCTGCCTCTGTATGTGGTACAGAGAGTCGCCATCACTGTGCCCGGATGATTCTGTGGCAGCGAGGGTCGCTCGCGGTGCCTGGTGTTTGGGGAGCCCCCAGGGAGGTGGGTGTGTGAGAGTCCCTTGTCCCTGGATGTTGTTTTGTGTTGTTTTTCCCCTTTCTTTTTGTCTTTTTTCTTCGCTTTGGCTGCACTGTACAGCTTTTGGGATCTCAGTTTCCTGACCTGGGGTTGAACCTGGGCCCTTGGCAGTGAGAGTGTGGCATCCTGACCACTGGACTGCCAGGGAACTCCCACTCTAGCTGGACGCATTCTGAGAGTGGGTTTCCTGGCTGTGACGAGCAGTTAGAGCGAACAGTTAGCCGGTTTTGGTGAGAGTGGAGTGCCCTGCACTCAGAGATCAGGCTGCGCACGGCCCCTGCGGGCGGCTGGACCGGATCCCAGCGGCCCCCAGAGGGAGCGCTCCAGGCAGTGGCCTTGTGCTGGCCCCTCTAGGCTGCCTGGCACTGGCTCCGTGTGCCGTTGTCTTATGAATCGTTTGTCTTGTTTTCTGTCCTGAAG
Seq C2 exon
GTGACGGCCTCTCTCTTAGGTGCCCCTTCTAAGACCAGCTCGCTGCTCATCCTGACAGAGAACGAAAATGAGAAGCGGAAATGGGTGGGGATCTTGGAGGGCCTGCAGGCCATCCTCCAGAAGAACCGCCTGCAGAGCCAGGCGGTGCACGTGCCCCAGGAGGCCTACGACAGCTCGCTGCCCCTCATCAAGGCCGTGCTCACGGCCGCCATCCTGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000016456:ENSBTAT00000021879:26
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:
NO
A:
NA
C2:
PF0078017=CNH=PU(1.9=6.8)
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:
GAGTTCTCTGTGAGCTCCGTC
R:
GTGAGCACGGCCTTGATGAG
Band lengths:
278-1383
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]