MmuINT0153450 @ mm10
Intron Retention
Gene
ENSMUSG00000035459 | Stab2
Description
stabilin 2 [Source:MGI Symbol;Acc:MGI:2178743]
Coordinates
chr10:86846868-86848165:-
Coord C1 exon
chr10:86848025-86848165
Coord A exon
chr10:86846976-86848024
Coord C2 exon
chr10:86846868-86846975
Length
1049 bp
Sequences
Splice sites
5' ss Seq
CAAGTATGA
5' ss Score
4.72
3' ss Seq
ACTCTCTTCCGGTTCCCCAGGAG
3' ss Score
8.41
Exon sequences
Seq C1 exon
AGCCTGTCTGGGCGGGACATTGAGCACCACCTCACTAATGTCAACGTCTCCTTTTACGATGACCTTGTCAATGGTACCGTCCTGAAGACTAGGCTGGGAAGCCAACTGCTCATCACCTCCAGCCAGGACCAGCTCCACCAA
Seq A exon
GTATGAAAAGTCCTCTGGGTTTATTGAGAGACCTAGAAAAAAATACCTGCAAAGCTCCAGGCATGAGTAGACACGTGTCTGATACCAACTATTATAATGTGAACCCCAGCTTTAAATCCACAGGCCAGGGTGGTATTAATGCAAACTGTGGCTGTGACATCATATCCTCCCAGGTCACCCCAGAGCCTTGGGAATAGGCTGGTCTCGAGATCTGAGTAATGAGTCTTGGTATGAAACCCCATCACCCAGCCAGAGAAAAGAAACTATTTTGAAGATGCTTTGTTCTCTACCTTTGTTTCAGTCAGTTTGTTATTCTATCTCAAGCATTAACACTTGAGCTTCCAAGTCAGATGAGCCAGGAATGAACCTCTGCCTCTCGTTAGCTGTAAGGACTTAGCCTACCCAGCTTTTCTGAGCTCAGTTTCTTCATCTGATAAGTAGGGACAAGGGTGGAAAAATGTTAATGATGACGGTGGAGGTAGTGATGGTGGCAGTTTTGAGGACCACAGTGACTGTGAACTCTAATCCATAGGCTGTCAGGGGTCCAGTCATTCAGAGTTTGTAATGTGGAAACACTGGGCCTGACAGGATGAGTCCTAAGCTGCAGTGCTTTAGACCAGCCCCCTTCAACCTCTGTGCACATCCAAGCCACCCGCAGTCTGTTAGAATATGACTGTCACTCCACAGGCTGGACGTGGCCTCAGTGACACCTACACCACAAGCTAGCGCTTACACATTGTTTAACACCTCTCACCTAGAGGTGTAGTGTGACCCCGAGCCTCCGGGTTTACCACTTACTGCTCAGGCACTCTTGGGCAGGCCAGTTTCCTTCTGGTAGCTCATCTGTCACATATGGGTTGGAGCAATAAGCCCAAAGGTCTCTCTGCAGCCCTCGGGTCAGCTTGTTTGATGGCACAAAGCCAGTGGGTATTTGACAGTACACAGGAGAGGTTAGGCTCTCAGATCTGAGAAGCCAAGTGGAAAACCTGCCTGTGTGGGGCAAGGGGAAAGCGGCTGTGGATCTCATGCACTCTCTTCCGGTTCCCCAG
Seq C2 exon
GAGGCCAGGTTCGTGGATGGAAGAGCCATTCTGCAGTGGGACATCATTGCCTCTAACGGGGTTCTCCATATCATTTCTGAACCTTTGAAAGCTCCTCCCACGGCCGCA
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000035459:ENSMUST00000035288:65
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=0.056
Domain overlap (PFAM):
C1:
PF0246917=Fasciclin=FE(40.0=100)
A:
NA
C2:
PF0246917=Fasciclin=PD(27.0=86.1)
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:
TGTCTGGGCGGGACATTGAG
R:
CGTGGGAGGAGCTTTCAAAGG
Band lengths:
239-1288
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