MmuINT0139067 @ mm10
Intron Retention
Gene
ENSMUSG00000042978 | Sbk1
Description
SH3-binding kinase 1 [Source:MGI Symbol;Acc:MGI:2135937]
Coordinates
chr7:126289857-126291245:+
Coord C1 exon
chr7:126289857-126290089
Coord A exon
chr7:126290090-126291042
Coord C2 exon
chr7:126291043-126291245
Length
953 bp
Sequences
Splice sites
5' ss Seq
CAGGTGAGT
5' ss Score
10.67
3' ss Seq
TGTTGTTGTGGCCCTGCCAGGCA
3' ss Score
6.06
Exon sequences
Seq C1 exon
GGAGAAGATGAGCGTGGGCTGCCCTGAGCCTGAACCGCTCCACTCCCTGCCTTGCTGTGGGCCGGGGGCCGCCCCTGTACCAGGTGCAGGTGTGCCCCTCCTCACAGAAGACATGCAAGCGCTGACCCTACGCACACTGGCTGCCAGCGATGTTACCAAGCACTATGAGCTTGTGCGGGAGCTGGGCAAAGGGACCTACGGGAAGGTCGACCTGGTGGCTTACAAGGGCACAG
Seq A exon
GTGAGTGTTGGTGGGGTGGCAAGGTATTAAGGTTAGGGACATGCCTGGACAGAGGGCCAGAGCAGAAGGAGTTGACAAAGTGCCCAAACCAAGGCTAGGCTGCTTTGGGGCCATCTGGCGCCTTTGAGACAGATGAGCCTAGGGACATGCAGGAAGTGGTGCTAAGAACATTGGTGACACCTGATGCTGAGGAGCTGGAAAAGGTGAGGACAGGTCTTTGGGGACAGGACACCTTGTTTAGAGGGTATGGGGAGATAGCCCTATGGGACACAGACCCTGAAGTTCAGCCAGTCAGCCAAGGTCACAGCACGACAGTGTGTTTGAACTAGGATGAGACCCTGTACAGGCAAGGCAGGAGGAGTCTCTCGGACAGAGGACTAAGGCAGGAGGAGGAAAGCTTGCCTGGGTGCGCCCTAGTGCTTTCTGTGTGACCCTGGGCAATGGAACCTGTTCCTCTATTTAGGAAAGAAGGTAGGGCCTATGATGTGTAGCATTGTTGCTATTCCATAGCTGTGTGCCCAGTAAGGTACACATGCCTGCCCAGTTTGGAGGGCTAGTTCCTTATGGGGGATTCTCTTATTCACCCATTGGTAGCATTTGATGAGCCTTTGTGTGGTGAATTCTGGAGACTCTGGTACAGGGCAGGGCCTTATGTTCAGAGAGTCTTGTTCTAGCTAGGGCGATAAATACGACAGATGAGTAGACTGGATGTAGGGAAAATAGCTCAGGGTAGAGGCTGTAAGCCTTCCTGCTGGTTTTCAGTCAGGGGTTGTAAGGTAGAAAACGCAAGTCAGCCCTGCTCTGCTCGGTGGGCTTAGACAAGTCTTTTACCTGAGTCAGTTTTCCATCTCTGCTTGAGGACATCGTGCTGACCATGGCCACTAGCCTTACTGCAGGGACAGGTTGGACAGCCAGGTGTGGGAGTCTCACTGTTGTTGTTGTGGCCCTGCCAG
Seq C2 exon
GCACTAAAATGGCCCTGAAATTTGTGAATAAGAGTAAGACAAAGCTGAAGAACTTTCTGCGTGAGGTGAGCATCACCAACAGCCTGTCGTCTAGCCCCTTCATCATCAAGGTCTTTGACGTGGTCTTCGAGACCGAGGAGTGCTATGTCTTTGCCCAGGAGTATGCACCTGCTGGGGACCTGTTTGACATCATCCCTCCTCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000042978:ENSMUST00000056028:2
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion (1st CDS intron)
No structure available
Features
Disorder rate (Iupred):
C1=0.053 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0006920=Pkinase=PU(8.7=30.3)
A:
NA
C2:
PF0006920=Pkinase=FE(25.5=100)
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:
CTGTACCAGGTGCAGGTGTG
R:
GATGTCAAACAGGTCCCCAGC
Band lengths:
350-1303
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