HsaINT0031688 @ hg19
Intron Retention
Gene
ENSG00000121388 | CDC42BPB
Description
NA
Coordinates
chr14:103416102-103416939:-
Coord C1 exon
chr14:103416803-103416939
Coord A exon
chr14:103416242-103416802
Coord C2 exon
chr14:103416102-103416241
Length
561 bp
Sequences
Splice sites
5' ss Seq
AAGGTAGGC
5' ss Score
10.08
3' ss Seq
CTGTTTGTTTTTATTCATAGGTC
3' ss Score
10.71
Exon sequences
Seq C1 exon
TGTGTTCCTTTGCTTGCCACGTGTCCTGCAAAGACGGTGCCCCCCAGGTGTGCCCAATACCTCCCGAGCAGTCCAAGAGGCCTCTGGGCGTGGACGTGCAGCGAGGCATCGGAACAGCCTACAAAGGCCATGTCAAG
Seq A exon
GTAGGCGGCTTCATCTCCGCCCTCAGCCCTCGGTGCCTGTGAGGTGCAGTGACCAATAGCCATGCCCAGCCACTCTTGAAAGCAGCCCCTTGCTGCGGCAGGTGGCCCTGGTGCCAGTCCTAGGGGGCTTACCCTCCTGGGCACTGAGGCCATCAGGTCGGCGCAGCCGCTGTTCTGAATGGCCTGGGCATCCTGAGGCCTCCACGCAGACGCTCACTCAGAGTCCATCCTGGGCTGAGTGTCCAGCCAGTGGGCAGAAGCTCAGTCTGAAAGCCACTGTGCCAGGCCCACCTCTACGAGACTGTCGGGCTGCGTGTACCACAGCACCCTGCATGGGGTGGACACAGCGTTGGCTGAGCTGCCAGCTTTCCCTGGCACCGTCTGCTGCCACGCATGGACCCCTCCCCAGCAACGCCTTGAGCCTTCTTGGGCAAACATCCCTCTGTCCAAACAGCTCTGCCGCCAGCCTGGCAGCTGGAAGGAGATTGTGAACGAGTGTAATGGGGCCTGGCGGCCTGCCTGGCCTGGTGGAACGTGGCCACTGTTTGTTTTTATTCATAG
Seq C2 exon
GTCCCAAAGCCCACGGGGGTGAAGAAGGGATGGCAGCGCGCATATGCAGTCGTCTGTGACTGCAAGCTCTTCCTGTATGATCTGCCTGAAGGAAAATCCACCCAGCCTGGTGTCATTGCGAGCCAAGTCTTGGATCTCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000121388-CDC42BPB:NM_006035:25
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:
TGTGTTCCTTTGCTTGCCACG
R:
CCAAGACTTGGCTCGCAATGA
Band lengths:
270-831
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)