HsaINT0031653 @ hg38
Intron Retention
Gene
ENSG00000143776 | CDC42BPA
Description
CDC42 binding protein kinase alpha [Source:HGNC Symbol;Acc:HGNC:1737]
Coordinates
chr1:227031298-227033415:-
Coord C1 exon
chr1:227033334-227033415
Coord A exon
chr1:227031515-227033333
Coord C2 exon
chr1:227031298-227031514
Length
1819 bp
Sequences
Splice sites
5' ss Seq
AGGGTAAGT
5' ss Score
10.45
3' ss Seq
TATTGATTAAATTGTTCTAGGTC
3' ss Score
7.42
Exon sequences
Seq C1 exon
GGATGAAGAATTTTCTGTGAGTTCAGTCTTGGCTTCTGATGTTATCCATGCAAGTCGGAAAGATATACCCTGTATATTTAGG
Seq A exon
GTAAGTGTGTATGCTGTAATTTGATCACTGAATTATGTGTTTTTAATGAGTATATTTTGCCTCCCTATATAAATCATAAATTCACTATAAGTAAAACCAAATCTTATATTCTTTTATATATTCCATATCATCCAGTACTTGAAGGTATAGAAAATTGGTGCTAAGTATTTAATTAGTGAAAGACCTGGAGAAAGCATCAATATATGGCTTATAAAATATGCTTCCTGGTAGATAATATTTTTTAGTTCCAATTCAATTTTTAAATAAATACTACCACATGGAAAATTAGATAAGTGTGAGGTTTCTCAAGTTTTTAAAAAAATAAAAATGTCTGTCTTGAAAAATTAATGCGTTTGTTACTTACTGCTTTGTAACAGCCATTCCAAAACTTAGTAGCTTAAACCAACAGTGATTTACTATTTTTCACTATTCTGTGGACCAGCTGTACAGTTCTTGTGGTGTCCGCTAGTGTCACTGATGTGACTGCATTCAGCTCATTTGGGACCAGAACATCTAATGACCTTGCTCTTACATCTGGGTGCTGGCTGTTAGCTGGGTGATCTCAGTTCTCCTCTTTGTGAACTCCCTCCATGTGGTCTCTGGTCGTCAGGTAGGCTGGCTGAGCTCCCAGTGGCTGGCTTCTAAGAGAGCAAAATAAGCTGCCAGGCCCTTTGAGGACTAGGCCCAAAACAGGTATAATAACCCTTCTGCATTCTGTTGGTCAAAGCAAGTCATGAGGTCAGCCCAGATTTAAGGGGAGGGGAAATAGACTCCACCTCTTGATGAGAAGAATGGAATTCCTTAGGAGGACTTGTTGGTAGGCGTCTTTGGAGGCCCTTGCCACGATGCAATCTTGAGTGGGTAAATTAAGACAATAGAGGTTAAAAAAAAAAACTACTGCCCAATTGTTATGCCTATCTCCCTATATTTGTCTATGAATCTTGTATCTAAGGAAGGTCAGGCAAAGATTATACTTAGTCTCTTAGTTCCCAGACTGACAACTATTTATTTTCCTCCCAGCCACCAAGGGAGCCTACAGAGGCCCACTTATCTATAACTGATTTTCATAGTGTGAGTTTATTGTCACTGCTACTTAATAAGGAATTCTTTACTTATGATAAGGAATTCATATAGGTAAAATTTAAAACTGCTCTGATAGTGTTGTTTGTATAATGATAAACCTTCATTTAAATATTAATTTAAATGGTCAAATCTTAATGATAATGCGAGTTATTGTTGTGAAGTAACAGAGAATATATTTCTGAGCACTTCTGACCTTAAAACAAGTCACAAGTCAGTATGGTGTGGCGCTTAAGAGCATGGGCACAAGATCCCAGACTTGTAGTTGTATGTCCTTGGAGAAATGATTTAATTTCTTTGCATCACCATTTTTTTCATATATAAAATAAGGATATAATGACAGTACATCCTAAATCATGACGATGTTAACAGAGTTAAATGAGTTAATACTTGTAAAGTGCTTAGATCTACCTGGTGCTCAGTATTTACTCAATAAATGTCAGTTGTTGTTGTTGTTGTTATATATTTAATGCCTCTTTAGTGATAGTGTTCTGGCACTTTTACAGAAGGAAAATGAAAATGATACTAACATTTCAAATGGTGTCTGCCACCTTTGCTTTGTCATGTATTCTAGTGCTAAAGGTAGTTATTCTGATTAGGAATAGCTGAACTCCAGTAATGGTATCATTTAATGAATGCTTATTTTATTGGTGAGTGCTAAGCAAACTAACATAATCATGAAACTAGCATAAAGGGTGTCTGTTTTCTAATATCATGAATATTGATTAAATTGTTCTAG
Seq C2 exon
GTCACAGCTTCCCAGCTCTCAGCATCTAATAACAAATGTTCAATCCTGATGCTAGCAGACACTGAGAATGAGAAGAATAAGTGGGTGGGAGTGCTGAGTGAATTGCACAAGATTTTGAAGAAAAACAAATTCAGAGACCGCTCAGTCTATGTTCCCAAAGAGGCTTATGACAGCACTCTACCCCTCATTAAAACAACCCAGGCAGCCGCAATCATAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000143776:ENST00000366769:26
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:
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TGAAGAATTTTCTGTGAGTTCAGTCT
R:
CTATGATTGCGGCTGCCTGG
Band lengths:
296-2115
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