HsaINT0031689 @ hg19
Intron Retention
Gene
ENSG00000121388 | CDC42BPB
Description
NA
Coordinates
chr14:103414058-103416241:-
Coord C1 exon
chr14:103416102-103416241
Coord A exon
chr14:103414140-103416101
Coord C2 exon
chr14:103414058-103414139
Length
1962 bp
Sequences
Splice sites
5' ss Seq
CAGGTCTGC
5' ss Score
5.61
3' ss Seq
CAATGTTTCTTCCTTACCAGAGA
3' ss Score
6.98
Exon sequences
Seq C1 exon
GTCCCAAAGCCCACGGGGGTGAAGAAGGGATGGCAGCGCGCATATGCAGTCGTCTGTGACTGCAAGCTCTTCCTGTATGATCTGCCTGAAGGAAAATCCACCCAGCCTGGTGTCATTGCGAGCCAAGTCTTGGATCTCAG
Seq A exon
GTCTGCGTTTGGGCAGCACTGTCCTTGCTCTGTGAATCTTCCTCAGCTATCTTTAGCCAAAAGGACGGTGTGTTCCTTAGTAGTCTTTCACCTCATTAGTACTTCACCTGCTTCATTATTGTATGGTTGCAAAAATGGGTACAGCTTAGTCATGACTTCAGGCGCTCACATGCGTATGAACAGACATGCATACGGGCCTGCGTGCGCAGGAACGGGAGCGCTGTAGACGCTTCCTGCCTCGCATGTGTTTGCGTTGAGAAGTTTGCCACAGGGGAATTAATTTAACATAAGAAAACCACATGCCCAAGAACAAGCAGAAGATATCCCAGAGAAAAGCCACGCGGCCCACAGCCGTCTGTGCGTTTTAGAGACCGCAGCAGGTGCTGGTGTGTGGAAGAAGTCTGGAGCCGTGGGCCATGTGGGTGTGCGTGGCCGTAGCGTTTGCTATGTGACCCTGTCTCAGTGCCACCCAGTGTCAGCTGCAGGAGCAGGCGGGGCCTCCTTCCCACTTCCTCTTAGAGTTGACATCTGTGGCTCATCTGTTAGTGAGAAGAGGACAGTGGTCATGTTACTGGCATGTGGAATGTTGTTGTGAAGGTAAACGCATCACTAAGAGGCCTAGCTCAGCCCGGGGCCTGCACACGGAGCCATGCTACTGCCTTTGTGTCATCTCTGTGCTGTGCCCGTGCACCGTCTGTTGTGTGGTGCACACGGGACTGCTCTGGGCTCAGGCCGGGGCTGGGTACTCCATCTGTAGCATTGGTTCTTGGGGGCAGGGCTGCTGGGTGGGTACCCTGAGGACAGCGAGGGTGAGTCGGCATCACCTGGCAGCATACTCCACTTTCCATGTCCCTTCCCCCGGGGCACCCGCCAGTCCCTGGCTGTGCACAGGTGTGCCCCTGGCCTGGTGGTGAAGGGCCACTGGTAGACGAAAAGTTGGCATGAGCCCAAGTCAGGGGCCCCATCGGAGGGCTCAGCACTCTTTAGGGAACCTCTTCAGAACAGCATTTCCACACTGATCCCACACCCCGCTCCCCCTCTCACCTCCACACCCACCCCCTGCTCCCCCCTCACCTCCACACCCACCCCCACTCCCTCACCCCCCCACCTCCAAACCCACCCCCCACTCCCCCTCTCCACAGCCACCCCCCCACCTCTGCACCCACCCCACCTCCGCACCCACCCCACCCCCTCATCTCCACACCTAGCCCCCACTCCCCCTCATCTCTACACCCACCCCACTCCCTCTCACCTCCACACCCACCACTCCCCCTCACTTCCAAGCCCACCCCCCACTCCCCCTCACCTCCCTCCAAACCCACCCCCCACCCTCCCCTCACCTCCACACCCACCCCACCCTCCCCGTCACCTCTCCACCCACCCCACCCTCCCCCCTCACCTCCACACCTACCCCCCACCCCCCTCACCTCCAAACCCACCCCACCCCCCTACTCCCCGTCTCACCTCCACACCCACCCCCCTACTTCCCCCTCACCTCCACCCCCACCCCACCCCCGACTCCCCTCCACCTCCACACCCACCCCCCACTCCCCTGTCACCTCCACGCCCACCCCCCACCACCCCCCACTCCCTCCCACTCCCCCCTCACTTCCACACCCCTCACCCCACTTGTCCTCTGCACTTGGCTGTTGGAGGGACTGCCTGGCTGTGCCAAGTGCAAACCGAGTCTTCTGTAACTGGCATAGTCTGGAGGCACCAGCACAGTGGGGATGAGGCTCCGGGGTTTCCCTTGCGGCATCCCTAAGCCCTGAAACACCTGCCAGAGTCTTGAGTTTGTTGGCCCTGCCCGTGTTTCTTACATCTGGGGAGGCGAGGGACCCGCCCTCCACTGCAGAACACGGTGGTGGAAGGACATGGCAGGGCAGGGCAGGGCAGGGCGTGGGAGGGCCTTGGGTCCTGTGCGCGTGTCTCCCAGCGGGGTCAATGTTTCTTCCTTACCAG
Seq C2 exon
AGATGACGAGTTTTCCGTGAGCTCAGTCCTGGCCTCAGATGTCATTCATGCTACACGCCGAGATATTCCATGTATATTCAGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000121388-CDC42BPB:NM_006035:26
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=NA A=NA C2=NA
Domain overlap (PFAM):
C1:
NA
A:
NA
C2:
NA
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CACGGGGGTGAAGAAGGGAT
R:
ATATACATGGAATATCTCGGCGTGT
Band lengths:
206-2168
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)