MmuINT0153447 @ mm10
Intron Retention
Gene
ENSMUSG00000035459 | Stab2
Description
stabilin 2 [Source:MGI Symbol;Acc:MGI:2178743]
Coordinates
chr10:86850557-86850940:-
Coord C1 exon
chr10:86850778-86850940
Coord A exon
chr10:86850664-86850777
Coord C2 exon
chr10:86850557-86850663
Length
114 bp
Sequences
Splice sites
5' ss Seq
AAGGTCATT
5' ss Score
4.32
3' ss Seq
CCCTGTGCCTTTCCTTCCAGATG
3' ss Score
12.66
Exon sequences
Seq C1 exon
GCCAAGTATCACCTCTGCTCAGCTGGCTGGCTGGAGAGTGGGCGGGTTGCCTACCCCACGATCTACGCCTCTAAGAAATGTGCAAACATTGTGGGGATTGTAGACTACGGAACCAGGACCAACAAGAGTGAAATGTGGGACGTCTTCTGTTACAGAATGAAAG
Seq A exon
GTCATTGCCCGTCCACTGCAGGCTCTCTGCCTGGACAGCCGATCCCCAAGAGTGAGTGAGCAGAGTGGCCCAAGCCTCACCTTACTGGGCGTGGCCCTGTGCCTTTCCTTCCAG
Seq C2 exon
ATGTTAACTGCACCTGCAAGGCAGGCTACGTGGGCGATGGCTTCTCCTGCAATGGGAACCTGCTGCAAGTCCTCATGTCCTTCCCCTCACTCACGAACTTCCTGACA
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000035459:ENSMUST00000035288:62
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:
PF0019312=Xlink=PD(53.8=90.9),PF129472=EGF_3=PU(63.0=52.7)
A:
NA
C2:
PF129472=EGF_3=PD(34.8=44.4)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GTATCACCTCTGCTCAGCTGG
R:
AGTGAGGGGAAGGACATGAGG
Band lengths:
249-363
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