MmuINT0032901 @ mm10
Intron Retention
Gene
ENSMUSG00000024769 | Cdc42bpg
Description
CDC42 binding protein kinase gamma (DMPK-like) [Source:MGI Symbol;Acc:MGI:2652845]
Coordinates
chr19:6313891-6314365:+
Coord C1 exon
chr19:6313891-6314070
Coord A exon
chr19:6314071-6314284
Coord C2 exon
chr19:6314285-6314365
Length
214 bp
Sequences
Splice sites
5' ss Seq
GAGGTTGGT
5' ss Score
6.36
3' ss Seq
GTCCCTGTGCCCAATCACAGCTC
3' ss Score
6.07
Exon sequences
Seq C1 exon
GAGCTGACTGAAGCTCAGGCAGCATTGCGAGTGCAGGATGCTGAGCTGTGCCAAGCGCAGAACCGGCAGGAAGAATTCCTGCAGAGGCTGTGGGAAGCCCAGGAGAGAGAGGCAGCTGCAGCCAGCCAGATCCAGGCCCTGAACTCCCAGCTGGAGGAAGCCTGGGTTGTCCGGAGAGAG
Seq A exon
GTTGGTGATGGAGAGGCAGTGGGAGAGTTCAGAGTATTGGGAACCCCGTATGGTTAGCACCCTGTGGGGCTGGTTACATTGGACAGGGCCTGGTGGTGAGATAGGTACCTGGGGCTACCTGTGTTTGCTGCTGGATGTGAGTTTACATCAGGATGACACAAAGAGGATTAGATGGTCAGGGTTGACATTACCTTGTCCCTGTGCCCAATCACAG
Seq C2 exon
CTCGAAGGCCAGGTGACCACCCTGAGTCAGGAGGTGACACGGCTCCAGGGACAATGTAAACAAGAATCTTCACAGGCCAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000024769:ENSMUST00000025681:13
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.117 A=NA C2=0.444
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GAGTGCAGGATGCTGAGCTG
R:
CTTGGCCTGTGAAGATTCTTGT
Band lengths:
233-447
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development
- Ribosome-engaged transcriptomes of neuronal types
- Neural differentiation time course
- Muscular differentiation time course
- Spermatogenesis cell types
- Reprogramming of fibroblasts to iPSCs
- Hematopoietic precursors and cell types