RnoINT0032632 @ rn6
Intron Retention
Gene
ENSRNOG00000002841 | Cdc42bpa
Description
CDC42 binding protein kinase alpha [Source:RGD Symbol;Acc:621406]
Coordinates
chr13:98344336-98346714:+
Coord C1 exon
chr13:98344336-98344536
Coord A exon
chr13:98344537-98346465
Coord C2 exon
chr13:98346466-98346714
Length
1929 bp
Sequences
Splice sites
5' ss Seq
AAAGTTAGT
5' ss Score
4.24
3' ss Seq
GTATATCATTGTCTGTGTAGGAG
3' ss Score
6.28
Exon sequences
Seq C1 exon
GTCCAGTCCTCAGTGGCAGTTGGAACTCCAGACTACATTTCCCCGGAAATCCTTCAGGCTATGGAGGACGGGAAAGGCAGATATGGACCAGAGTGTGACTGGTGGTCCTTGGGAGTCTGCATGTATGAGATGCTTTACGGAGAAACACCATTCTATGCGGAATCTCTGGTGGAGACATATGGAAAAATTATGAATCATAAA
Seq A exon
GTTAGTATATTTTTTATAATTTTTACAGCAAATACATATAGTAATTAAAGTAATATGATAGTAAAGAGAAAATACTTTTTTCAAAATAATGAAAACTCATATTTTTTGGTTAGTAGAAGATAATCATTCTTAATCATAATCTATGAAATAATTAATTTTAACCTTTTACTACACCTTGTTTAGAAGTGTTCTTAAATAGACAGCTGGTCTATGGTCTGTGTAGTTGAGTAATAGAGTTTAAAAATGGTTAGTTTTTTCAATCAGTTTTAACTATTTAATATGTACAGTCATGACAAGCATGCATGCACAAATTCTCAGCATCATTAATAGTGAAGGAAGTGTCAGTAGAGATAAAAATGAGATTTTCTTGGCGTCAGAAGATGACTCCGTAGCTACGATGCTTGCTGTGCATGCACGACTTCTGGCCTTAGTTCAATCCCTGAAATGCACAGAAAGATGGAAGGAGGGAACCGACTCCATAGAGCCGCCCTCTGACCTTCACACAGGCAGCATGCACTCCTGTGTGTGCACACGCACATACCTGTAGTCATACACCACAACCATAGTTTTGTTTTACTGAGAGTCTTCTGTCAATTTAGCAAGTACAAAATGAAACATCTGTACCCTAATAAATGCAGCCTCATGGGTACTCCTCAGACTTTATTGACAGGATGGCAAGTTGTAACTTTCTGTCACAAAGTTAACAGCTGTACATCTTGTACCTGAAAAGGATGGTTAGAGCTTTTGATGGACCAAGGTCAGGCTGAGAAGTCAGCCTGGTTGGGAATCTAGAACAGTGGCGTGCATAGGCTATCTGTCCCGCTATCAGTGACCACAAAGTACTGGCAGCCACAAGAAGATCACAAAACGCCAGCACTACAGCACTAAATGAGACTTGTGAACAGTTTCAAAAGTTCTCAATATGAAGCTGAGTGTCCCAAAAGAATAGGGTTAACGTGTGATGTTTAATTGGTTCTGGGGATGCAAATTTGATTAGTGTACTCTGCATGCAAATCAATTTTAGAGACTCTGTGTCTTCTTCTGAGCTGCATCTACAGTGCAGTAAGTCGTTCTGTAGGAAGAGCTGAAAGCTAGGGAGAAGTTTGCAGTGTGTGAAGGCCTGTGCACCATTCAGAAGGACATCACTTCAGCGCAGTATGCTGTTGAACAACACAGGTGTAGAGAGTTCAAGTCCCTTTTCCTGTCATTATTAGTTGTATGCCATTGAGAAAATAACTCTTAGTTTCCTCTTCTACAAGACTGTCATACTAGCTGTTCCTACCCAGTGTGATTATTAAGAGGATTAAATGGGTTAAATTAGTAAGTCTCTTTTAATAGTGCCAGATACATGTTAAATTTTCAATTGTTTAATGATTAACTGATATTTTACATCGTATCTGAGCATATCAGTAATCTACTTCTTGGGAAATACTGAGTTAAAATCTTCTACTTGTAATCAGATCCACCTGATTTTAACAGCAACTTAACATTCTAGAACAGTGGCTCTCAACCTTTTTGAACACTGCAACCCTTTAATACAGTTCCTCATGTTGTGATGACTCCTAGCCAAAAAATTTATTTTGTTGGCACTTACTACTGTTATGAATTGTAATATAAATATCTGTATCTAGGGTATCTGATATGTGGGCCCTAAAGGGGTTGCAACCCACAGAGTGAGACCCACTGCTATCCAGCATCTGACCCTCTCTCTGTAGTTCATCTGTCATGAAGTAACTTTGAGAATGAAAATTCCCTTAGAAAAAGGATTTACTCCATCATCCCTGTGTCTCCTCCTTACAGTATCACTGCTATGTCATCAAACATCTACTAGACACTTTTCAAAGGGAAACGCATTTAAATAAATCTACCACCATTTTGTAAGGTAACTGCTGATTTGTATTTACACTCTGTATATCATTGTCTGTGTAG
Seq C2 exon
GAGAGGTTTCAGTTTCCAACCCAAGTGACTGATGTGTCTGAAAATGCTAAAGATCTTATTCGAAGACTCATTTGTAGCAGAGAACATCGACTTGGCCAGAATGGAATAGAAGACTTTAAGAAACATCCGTTTTTCAGTGGAATTGATTGGGATAACATCCGAAACTGTGAAGCACCTTACATTCCAGAAGTTAGTAGTCCAACAGACACGTCAAATTTCGATGTGGATGACGACTGTTTAAAAAACTCT
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000002841:ENSRNOT00000003837:7
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=0.157
Domain overlap (PFAM):
C1:
PF0006920=Pkinase=FE(24.7=100)
A:
NA
C2:
PF0006920=Pkinase=PD(16.5=53.0),PF0043319=Pkinase_C=PU(42.6=24.1)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TCCAGACTACATTTCCCCGGA
R:
AAGGTGCTTCACAGTTTCGGA
Band lengths:
353-2282
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]