HsaINT0031659 @ hg19
Intron Retention
Gene
ENSG00000143776 | CDC42BPA
Description
CDC42 binding protein kinase alpha (DMPK-like) [Source:HGNC Symbol;Acc:1737]
Coordinates
chr1:227204628-227211048:-
Coord C1 exon
chr1:227210964-227211048
Coord A exon
chr1:227204752-227210963
Coord C2 exon
chr1:227204628-227204751
Length
6212 bp
Sequences
Splice sites
5' ss Seq
CAGGTAAGA
5' ss Score
10.77
3' ss Seq
TTGTATTTTTATTTTAACAGAAG
3' ss Score
7.85
Exon sequences
Seq C1 exon
GTTCGACCCTTAAACAATGAAGGATCATTAAATCTTTTAGGGTTGGAGACCATTAGATTAATATATTTCAAAAATAAGATGGCAG
Seq A exon
GTAAGAAAATACATATATTCATAGGGATAGCTTCATTGGAAATATTATTTCTAAGCTAACTGCCCAAGGTCACATTAATAATAAGTGCCAGAGTCCAGATTTCAACACAGGTGTATCTTACTCCAAGTCTATGATGTTGGCCACTATCACATTCTTAATATATTAGAATAAATTACTGGGCAAAAAGTCGTTCTGTTTAAGCTCACTTAAGTATTTGATTCTGATGTACCTTGTTATTTTTCTGTGGAGTACCTGAGTAAGTAGAGAAAGTGTAGCTGATTATGTCTTCTGTATTTTCAATATTGTAGAACCTAACCAAAATTTGTAACATTAAAATTATAAACACTCATCTAGAGTTGAGGAATATGTCTTCAGGAACATATCTTCTGCCAGTGTACAGGGCCTAGCACTTCGAAAGTGGTGATGTCAGCATAGGAAGAAGCAGGAAAGAGAGGAGAGTCATGGGAGTGCCTGGAATCAGGAGAGGGAGTAGAGACCCAGAGTGTTACAGACAGGAGGGGAGGATATTTGGTCAGTGACCAAAATATTGAGGTCACACATGTCATTACATACCACACATAAAATGCCAGGGAGACTGTTCACATAGAATTAAATGTTGTTTGCCTGTCAGGGTGTCCAAACAGTTAAAGTCTCACTTTTAACGAACATTATTATAGTGCCCTCTTCTATATAATAAAGTCATTTTTGTGTCATAGCAGCAAATTTCTATATAATAGAAGTATTTGTAAATTTCTGATCTGTTATGGCAAGTCTGTTAGCGAGGATGTATTTACAGTACATTATGTATTTTAAATAATTTTTTTTTTTTGAGACGGGAGTCTCACTCTGTTGCCCAGGCTATAGTGCAGTGGCACAATCTTGGCTCACTGCATCCTCCTTCTCCTGGGTTCAAGTGATCCTTGCACCTCAGCTTGCTGAGTAGCTAGGATTATAGGTATGCACCACCACACCCAGCTAATTTTTTGTATTTTTAGTAGAGATGGAGTTTCACCATGTTGGCCAGGCTGGTCTTGAACTCCTGACCTCAAATGATCCACCTGCCTCAGCCTCCCAAAGTACTGGGATTATAGGCCTGAGCCATCACGCCTGGCCAGTATTTAAAATAATTTTAAGTAGACAAATATAAGTAAAAATACTGGCTTCAAGAAAACACATTAAAATGTTTAGACCCATTATTTTGGGGTAGTTAATTTTTATTTTTATTTTATTTTTTTTTTGCGGGGGAGACGGAGTCTCGCTCTGTTGCGAGGCTGGAGTGCAGTGGCACCATCTCAGCTCACTGCAACCTCTGCCTCCTGGGTTCAAGCGATTCTCCTGCCTCAGCCTCCTGAGTAGCTGGGATTACAGGCACGCACCACCATGCCCAGCTAATTTTTTTGTATTTTTAGTAGAGACGGGGTTTCACCATGTTGGCCAGGATGATCTCCATCTCCTGACCTCGTGTCCCACCCACCTTGGCCTCTCAAAGTGCTGGGATTACAGGCGTGAGCCACCGCGCCTGGCCATGAAATTATTATCTTAATGGTTTTCTCCCACCTACCCCATATTCCTCTAATAAATTTGTGTTTTCTACTATCAAAAAAAAAATCCATCAGAAGTTTTTCTGTGATTATTTTTGTTGGTTTTGTTTTATTTTGTTGGTGTGTTTTTGTGTTATTAAGTACTGGAATACACAAAATTGCTTGATTTCTGGTTCAGTGCATTGGTACATTGTCTTGGAACCAGAGGTTTCTTGGTGAACAGGCTGGTGAATATAGCAGAAGTCTATGGTAAGACTCCATTATGACTTAAGAAAGTATATTCAGGTTTTAGAAGTGATTCTCATTTAGAGATGGATACCCCGTGAAGTTAATGAAATGTAAGCTTTAGATGCTTCACTTCCAAGACCCATACTTAGTTTTATACAGGCATACCCCCATTTTATTGTGTGCCACTTTATCGTGCTCCACAGATACTACATTGTTTACAAGTCGCAGGTTTATGGTAACCCTGCCTCTAGTAAGTCTCAGTGCCATTTTCCCAACAGCGCGTGTTGACTTCATGTCTCTGTTTCACATTTTGGTAATTCTTGCAATATTTCAAACTTTTTCACTGTTATTCTGTCTGTTACGGTGATCTGTGATCAGTGATCCAAATTTGAGGTTATTGTAATTGTTTTGGGGTGCCACAAACCATGCCCATATAAGATGCCAAACTTAATTGATAAATGTGTGTGTTCTGACTGTTCCACCAAGCAGCTGTTCCCTGGTCTCCCTCCCTCTCATTGGGCCTCTCTATTCTCTGAGAACCAACAATAGTGAAATAGCCCAATTAATAGCCCTGCAATAGACTCTTAAGTGTTCAACTGAAGAGTCGCACATCTCTTACTTTAAATCAAAAGCTAGAAATGATTAAACTTAATGAGGAAGGCATATTGAAAGTCGAGATAGGCTGCAAGCTAGGCCTCTTGCAACAGTTAGCCAAGTCATGAGTGCAAAGGAAAAGTTCTTGAAAGAAATAAAGTGCTGTTACAGAGAACACATGAATGATAAGAAAGTGAAACAACCTTATTGCTGTTACAAAGAAAGTTTTAGTGATCTGGAGAGACTGTCAGCCGCAACATTCCCTTAAGCCAAAGCCTAATCCAGAGCAAAGCTTTCTCTTCAATTCTGTAAAAGCTGAGAGCTATCAGGAACCTGCAGAAGAAAAGAAGCTAGCAGAGTTTGGCTTATGAGATTTAAGGAAGGAAGCCATCTCCATAACATAAAAATGCAAGGTGAAACAGCAAGTATTGATGTACAAGCTCAGCAATTTATCCAGAAGACATAGCCAAGATAATTGATGAAGGTGGCTACACTGAACAATACGAAATTCAGTTTAGCTAAAACAGACTTCTGTAGGAAGAAGATGTCATCTAGGACTTTCATAGCTAGAGAGAAGTCAATGTCTGGCTTCAAAGGACAGGCTGACTCTTGTTAGGAATTAATGCAGCTTGTGGCTTTACGTTGAAGCCAGTACTCATTTACCATTTGAAAAAATCCTAGGCCCTTAAGAGTTACAGTAACTCGGTTGGGCATGGTGGCTCACACCTGTAATCCCAGCACTTTGGGAGGCTGAGGCAGGCAGATCACCTGAGGTCAGGAGTTCGAGACCAGCCTGGCCAACATGGAGAAACTCTGTCTCTATTAAAAATACAAAATTAGCCAGCTGTGGTGGCACATGCCTGTAATCCCAGCTACTTGGGAGGCTGAGGCAGGAGAATCGCTTGAACCTGGGAGGTGGAGGTTGCGGTGAGCTGAGATTGTGCAGTTGCACTCCAGCCTGGGCAACAAGGGCGAAACTCCATCTCAAAAAAAAAAAAGAATTATGGTAACTCTACTCTGCCTGTATTTTATAAGCAGAACAACAAAGTCTGGATGGCAACACATCTGTTTACAGGATGTCACTGAAAATTTTAAGCCCACTGTTGAGATCTACTGCTCAGAAAAGTAATACTTCTTTCAAAATATTACTGCTCATTGACAATGCACCTAAGTCACCCAAAATCTCTGATGGAGATGTACAAGGAGATTGATGATATTTTCACGTCTGCTAACACAGCATCCATTCTGTAGCCCATGGATAAAGGAGTAATTTTGACTTTCAAGTCTGATCATTTAAGAAACACATTTCATAAGGCCATAGCTGCCACAGATAGTTATTCCTCTGATGAATCTGGGCAAAATAGATTGAAAACCTTCTGAAAAGGATTCACCATTCTAGATGCCATTAAGAACGTATGTGATTCATGGGAGGAGGTCAAAATACCATCATTCACAGGAGTTTGGAAGAAGCAGATTCCAGCCCTCATAGATGACTTTTAGAGGTTCCAGAAATCAGTGAAGGAAATAACTACAGATGTGGTGAAAAGAGCAAGAGAACTACTAGAATTAGAAGTGGAGACTGAATTGCTGCAATCGCATGATAAATTTGATTGGATGAGGTGTTGTATCTCATGGGTAAGCAAAAAAAAATGGTTTCTTGAAATGGAATCTACTCATGGTGAAGATGTTAAGAACATTGTTGAAAAAACAAGAAAATATTTACAATATTACATACACTAAGGTGATAGGGCAGAGGCAGGGTTTGAGAGGATTCACTCCAGTTTTGAAAGGAATTCTACTGTGGGTAAAATGTTACCAAACAGCATCATTATGCTATGGAGAACCATCTTTTGTGAAAGGAGGAGTTAGTGTGGCAAACTTTATTGATGTCTCACTTTAAGAAATTGCCACAGCCATTCCAGCCTTCAGCAGCCACCACCCTGCTCAGTCAGCAGCTTATCCACATCGAGGTAAGACCCTCCAACTATCAACAAGAATATGACTCATGAAGGTGAAGATGATTGTTAGCATTTTTGGCAATAAAGCATTTTTAAATTATGGTATGTATTTTTTTTAGACACGTACTGTTGCACACTTAACAGACTACAGTATAATGTAAACATAATGTATATGCACTGGAAGACCAAAAAAATAGTGTGACTTGCTTTATTTTGATATTTGTTTTATTATGTGGTCTCAAATTGAACCTGCACTTTTTCCAAGGTATGCCTGTATTCTGTTTCTTAGAGGAACTCCACATATTTGTATAAGATTGGCTCCACCTTATTCTCACTGTGTGTGACTATGCTGGTCATAAATGTGTTCATACCCACTATGTGTCTATAAGACAAAACCTATTCTGACTTGTCTTTTCCCATGCTTTTTCATCTTTCTACTCTAGGCTAAGAGTAGAGGTAGATCTTGGAGAAGAGGGACCTGACAAAATTTTAATGTAGTTGTCTTTTTCTTTGACAAAGGAAGGAAAGCCCATCTCAAGAGGTCCTTTCTTTTTCTGTGTTTTGCTTTCTCCATCATTTCTTAAGAGGTCAAAGTGTTCCTGCAACCCTCTGCCTGTCCAAAATCTCCCATTGCCACCCTGAGTCTCCAAGACCTGCTTTACCCTCATAATTCTCAAATTCCAAATTTGTGTCCCACATTCTCATTCACTTCAAAAATTCTGTTCTTTGGCTGGGCATGGTGGCGCATGTGCCTGTAATCCCAGCTCTTTGGGAGGCCAAGACAGGAGGATCACTTGAGCCCAGGAGGTCGAGGCTGCAGTGAGCTATCATGGTGCCACTACACTTCAGCCTGGGCAACAGAGCAAGACCCTGCCTCAAATAAATAATAATAATAATAATAATAATAATTCTATTTTTAAAATATTTACTGTTAGGAAAGCAGTCTGCCTAAGCCATATGATTATGCCACGAGGATCATGTTGCATTTCTGCTAATTATCACCTTTGTTTTCTTCTAGGCTCGTTTGGCTTCTTCTCACCTCCTCCTTCTCACTTCAGCTTTTTGGGTGTTGAAAATTTCTAAACTTTGCTCTTTTTCCTTATCTTATTTAGATAATGACACCATTTGTTGTGTTATATGGATACAGTTGTCTATTTTTTTCTTATTTTCACACAGCCCAGCATGTTTTGGGAGTCCCTGGCAGACAGTTTTGTTTACTTCTAGATATTAAAACTGACATCGGATAAGACTATCACTGGGTTGCTAGGTGTATATGATTAAACATCATCTACCCCCAAGATCAGAAGAGGAAAAATAGCGACAGATTCTTACCTTTTATAAAGGAAGGGTAGTGGAAGCACAGCTCCTTCTTTTTACTCCGTATCTCATAGACTGAACCTTGCAAAGGAAATTTTTTTATTATGTAAAGATAGTTGTAATTGTTATTTACCACTTATGGTAAATCAGGCTTACCATTTATGCCTGATTACTGTTCAGGGTAACAGTAGTAGCTCTTTAACAACACCCTAAGCCATTGAAATCAATACCTGGAGGGAGAGAAAATATAGTATTGAGATACTGGGGTGGGGTGGCTGATTAGTGACAGAACACCAAGGCAACTGCAGTTTTCTTCTAGTAAAATTATGTCCTACTGTGTTTATAATCAAGTAAAAGTGAAAGTATATTTTGTAAGCTATGTTTACTTTCAGCATATTATCTGTTTACATAGGTTCTGTTAAATATTATTTACTGGGTTATCAACACAACATTTAAAAACCAGAATTGCATGTACTTGTACTATCAATGTTTGTACTGTCTTGGAGGTTAATAGATAAAAAGCATTTTAACAGTTTAAAGAACATCATTATCGTTTGTATTTTTATTTTAACAG
Seq C2 exon
AAGGGGACGAACTGGTAGTACCTGAAACATCAGATAATAGTCGGAAACAAATGGTTAGAAACATTAACAATAAGCGGCGTTATTCCTTCAGAGTCCCAGAAGAGGAAAGGATGCAGCAGAGGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000143776-CDC42BPA:NM_003607:31
Average complexity
IR-C
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.805
Domain overlap (PFAM):
C1:
PF0078017=CNH=PD(2.6=24.1)
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
No suggested primer sequences
R:
No suggested primer sequences
Band lengths:
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Autistic and control brains
- Pre-implantation embryo development
Other AS DBs:
FasterDB (Includes CLIP-seq data)
AS-ALPS (AS-induced ALteration of Protein Structure, links to PINs)
APPRIS (Selection of principal isoform)
DEU primates (Only for human)