RnoINT0032617 @ rn6
Intron Retention
Gene
ENSRNOG00000002841 | Cdc42bpa
Description
CDC42 binding protein kinase alpha [Source:RGD Symbol;Acc:621406]
Coordinates
chr13:98423084-98424229:+
Coord C1 exon
chr13:98423084-98423223
Coord A exon
chr13:98423224-98424147
Coord C2 exon
chr13:98424148-98424229
Length
924 bp
Sequences
Splice sites
5' ss Seq
GAGGTAAGC
5' ss Score
9.85
3' ss Seq
ATGTTTAACTTTTATTTCAGAGA
3' ss Score
7.77
Exon sequences
Seq C1 exon
ATCCCTAAGCCGGCGGGAGTGAAGAAAGGGTGGCAGAGAGCACTGGCTGTGGTCTGTGACTTCAAACTGTTTCTTTATGATATCGCGGAGGGAAAAGCATCGCAGCCCAGCTCCGTCATTAGTCAAGTGATCGACATGAG
Seq A exon
GTAAGCCCAAGGAACAAAGGCAAATGTGTCAAGGCAGCGTGCAGCCAAGATTCATGGTCTTTCTTTTAGATTACTACGTTTTGGTAAAATAATCTAATTTTGTGTCAGTTTTTAGATTGTGCCCTATAGCTACATATTAGACAGTCAGAAGTTAGGGGTGGTTCTAGGTCAAGTTGGTTTATGTATCGAGTACGTAAAACTATAAGTCAAAGTTGGGGTCTAAAAGACTAGTTATGTAGTAAAAGAGAACTAACTAGGTGCTTTTCAAGTCATTGTCTGTAACCGCCAGGTGACTGGTGTAAGTGAAGGGGTAACTCTCCCAGCAGCCCCTGGACAACATACTAAAGCGGCAAACACCTAAGAGTCTGTGATTGCCTAGCACCATTGTCCAAGTGCCCCTCAACACCTCCCTCCTTTTCCTGGAACTTCGGGCACTCTCCTGGAGGGTTTGTTTTCTCCTGCAGCTTCAGCCATTGCTCCTGACTGATGGGTCCCACATGACTCCTATTCAGATGTAGCCATCGCTCAGAATGCAAGTCTCCGGGGTGCCTAGTGGTGACTGAAGCACAGGGAACACCAAGGGGGAATCAGCAAAGATGGTTGGCAAACCTGCTGACGGACTGAATGACACGTGGGGAGCTAGCGAAGGGCAGCTCCTTAGCCCACACGCTTAAGGGTGATGTGGACAACAGCCAAACTGTCCGTTACAACTCTCTCACACACACACACACACACACACACACACACACACACGTGTGTGTATATATTCTTGTGTTTTGGTTTTTCGTCTTGTTTTAAGTTGAGCTTGGGTGTTTGTACAGTCAAACTTTGAGGATTGTTTCATATATGTTAGTTGGGTATATAAGCAAAACCATACACACACAGAAACATGTAATAACCTTAAATGTTTAACTTTTATTTCAG
Seq C2 exon
AGATGAAGAATTTTCCGTGAGTTCAGTCTTGGCTTCTGATGTTATTCATGCAAGTCGAAAAGATATTCCCTGTATATTTAGA
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000002841:ENSRNOT00000003837:26
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:
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:
ATCCCTAAGCCGGCGGGA
R:
TACAGGGAATATCTTTTCGACTTGCA
Band lengths:
214-1138
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]