MmuINT0153363 @ mm10
Intron Retention
Gene
ENSMUSG00000042286 | Stab1
Description
stabilin 1 [Source:MGI Symbol;Acc:MGI:2178742]
Coordinates
chr14:31145224-31145921:-
Coord C1 exon
chr14:31145775-31145921
Coord A exon
chr14:31145365-31145774
Coord C2 exon
chr14:31145224-31145364
Length
410 bp
Sequences
Splice sites
5' ss Seq
GAGGTGAGC
5' ss Score
8.7
3' ss Seq
CAACCATGTGCCTCCCACAGGGC
3' ss Score
9.48
Exon sequences
Seq C1 exon
GATGAGCTGGCTAGGATACGGGCCCATCGCCAGCTTGTGTTTCGCTACCACGTGGTTGGCTGCCGGAAGCTGTGGAGCCAAGAGATGCTGGACCAGGGCTATATCACTACACTGTCTGGACACACTCTGCGTGTTAGTGAGAGGGAG
Seq A exon
GTGAGCTCTTACACTGTTGGTCCTACCGCCCGGTTAGGATTCAGTCTCTGTGCCCGGTCTCCATTCCTTTAATACTCAGCCCAGATCTGAAATAAGAGGGAGAGGAGTCTGGCCCAGAGGGTACCCTCACTCTGGGCCCTACTCATTAGTCCTGGCCTGCCCCAACCTGGGACTCTCAAGGTAAGCTGGTACCAGCACCAAGTTCCCACAATGCCAAGCCTAGTGTGGTGCCTTGTGTAGGCTTCTCAGTGGGATGGAAGCCCTACCACCTGTCTTGACTCTGCCCTTGACCAACTCACCTTCAACCTCAAAGTGCAGGACTGGCTATCATCTCAGGCCCTGCTCTGTCCTTGGCACACCCCATAGCTTTAAGCATTCGGCTGATCAATACAACCATGTGCCTCCCACAG
Seq C2 exon
GGCAGCATTTATCTCAATGATTTTGCTCGGGTGGTAAGCAGCGATCTCGAGGTGGTGAACGGTGTCCTGCACTTCATTGACCACGTCCTGCTGCCACCAGATGTGCTACACTGGGAGTCTGGTGCTATCCCAATCCCTCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000042286:ENSMUST00000036618:48
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:
PF0246917=Fasciclin=FE(40.3=100)
A:
NA
C2:
PF0246917=Fasciclin=PD(26.1=66.0)
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:
ATGAGCTGGCTAGGATACGGG
R:
TGAGGGATTGGGATAGCACCA
Band lengths:
286-696
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