RnoINT0032624 @ rn6
Intron Retention
Gene
ENSRNOG00000002841 | Cdc42bpa
Description
CDC42 binding protein kinase alpha [Source:RGD Symbol;Acc:621406]
Coordinates
chr13:98435234-98436352:+
Coord C1 exon
chr13:98435234-98435318
Coord A exon
chr13:98435319-98436228
Coord C2 exon
chr13:98436229-98436352
Length
910 bp
Sequences
Splice sites
5' ss Seq
CAGGTAAGG
5' ss Score
11.08
3' ss Seq
TATTATTTTCTTTCTCACAGAAG
3' ss Score
9.63
Exon sequences
Seq C1 exon
GTTCGACCTTTAAACACTGAAGGATCATTAAATCTTTTAGGGTTGGAGACCATTAGATTAATATATTTCAAAAATAAGATGGCAG
Seq A exon
GTAAGGAAATATATTAATAGGATCATTTCAATGGAAGTATTATAGCAGTCCAGGGCATTTGGATATGAAGTGCCTCGGCCCATATTTGTATCCGGCACATCTCACTCCGGAGTGTGTGGTGTGCACTGTCAAACTCTGGCAAGACAGTAAAGGCGGTCTGTAAGCAAACAATGTGCTTACACCTGTGTAACTGCACAGAGAAGTGTCTGGCTCACACGGTGTTTCCCTGAGCAGCACCTGGGTAAGGAGAGAAGCGATGGCTGGATGTGTCTCCCGTGCCTGTGCTGCTGCAGATGTAGTCATGAGGCCTAAATTAGGACTGTTTGTCCAGAGACCCAGTGGGGACTTCAGGACCCATCTCCAGCCATTCAGAGCATCTGTCTCTAAAGGACTGAGAACAATCTGGAAGGAGGCTAAGAAGGTCACAGGAGTAAGGAGTCCCTGAGTGAGGACGTAGGACAGAGATTGAGGAGAGTGAGTGCAGGAGAAAATAATCTGTGAAAAGCGGGCTGTTTCTCGGGCCGAGAAGTGGCTCAACAGTTTAAAGAACACACTGCTCTTTGAAAGGACCGGAACCACCAAAATACTCCTTGCAGGGCAAAGAAGACAGTGTGGGTGAAGTGGCTGGTTAAAGCCACGACACCAAGACAGTTAGAGTTTCCTCCAGCAAAAGTGTAGCATCTTGTACTTATAATCAAAAGTGAGACTGTATTTTGTAAGCTATACTAATTTCAACATGTATCTTTTTACATATTCTACTGAAAATTATTGCTTGCTTTCTGATTTTTAGTGCATAATTTTTTAACTAGCACAGTTGTATATACTGTACAATTGATTCCCACATCACAGAGACTGGTGGGTAGGAAGATCTTTAACAATCTAAACAATATTATTATTTTCTTTCTCACAG
Seq C2 exon
AAGGGGATGAACTTGTAGTTCCTGAAACATCAGATAATAGCCGAAAACAGATGGTTAGAAACATCAACAACAAACGGCGTTACTCCTTCCGGGTCCCAGAAGAAGAGAGGATGCAGCAGAGAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000002841:ENSRNOT00000003837:32
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=0.843
Domain overlap (PFAM):
C1:
PF0078017=CNH=PD(2.6=24.1)
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GTTCGACCTTTAAACACTGAAGGA
R:
TCTCTGCTGCATCCTCTCTTCT
Band lengths:
207-1117
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]