MmuINT0153419 @ mm10
Intron Retention
Gene
ENSMUSG00000035459 | Stab2
Description
stabilin 2 [Source:MGI Symbol;Acc:MGI:2178743]
Coordinates
chr10:86896498-86898032:-
Coord C1 exon
chr10:86897940-86898032
Coord A exon
chr10:86896694-86897939
Coord C2 exon
chr10:86896498-86896693
Length
1246 bp
Sequences
Splice sites
5' ss Seq
ATTGTGAGT
5' ss Score
7.35
3' ss Seq
CACACTCTGTTTTGTTTCAGACA
3' ss Score
9.88
Exon sequences
Seq C1 exon
AGTGAGACGAGGAAATGCATCTATTCCGTTTACTTCATGGGGAAGAGATCCATTTTCATCGGGTGCCAGCTACAGTGTGTGAGAACCATCATT
Seq A exon
GTGAGTACGGGCTGGCTGTCCCGAGGCCACGGCATGTGGGTAGTCAGCCTCAGGTTAGCCTCTCGGGGAGGCTGTGGCAGTGTGTTCTTCCCAACGTCTGCCCCGTGTCGTCACTGTTACCGTCCAAAGTAGTACTGGTTACAGGAAAATGCAGAAAATGGGTAAAAACCAAAGTGCTGGGCTGAGTGAGGAGCAGACTGAGCTGTGGAAGGTGAGGAGGAAGCCCTGCTCCCACCGCACAGGCGTGCATGGGTGATTAAACTAATCTGCATTACTTAGTTAATTATGTAAACAAGACACAAAGGACGTAGTTACTGAGGGAAGGCAGGGGCACTTGCTCATTCAGAAAATGAGACAGCAATATCCAGGATCCCTGAACATCACTTGGAAATTTCCTTATAACTTACCGTCCTGTTTCTTCTCCAGAGGATGAGATTTCTTCTTCCAAGGGGTTGGAACTGCAGAGCTTGGGACTGGAGAGAGTATATGTTTTAATGCACTTAAGAATAAAGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTAGATGTCTCAGAAGTTAAGAGCACTGTCTGCTCTTTCAGAGGTTCTGAGTTCAATTCCCAGCAACCACATGGTGGCTCATGGCCATCTATAATGAGATCTGGTGCCAAACAGACCTCTTAGGGGCTTCCCTGAACCACAAGAGGTCCCCCTAAAATGCCAGAGCATATACTCCTTCCAGAGAGGAAACAGCATCCAGGAGGAGGGGTCCCGATTTGGGGGTGCCGAAGGCCTGTTGGTCCTCCCACCCCTCCAGCATCACCTGTGCACCAGCCTATAGCACAGCACCAGTGCTCAGGCAGTAGAAGATGATCAGATGCTCAAGGCCAGCATCAGCTAAATGAGACCCTGCTACAACAACAGTAACAATGATAACAATGAAAACAAGAACCACAATAATAAGCATAGTAAAGTTTGTCAAGCTGGCCTAAGCAGCTGTCACTGGCCACCCTCGGAAGTACCAGGATCACAGGCATGCGCCGTCAGACAGGTTTCCTCTGCTTCATTCTTCCTGCCTCCTCTACTTGGCTGCCTGCGGGGCTGGCTAGTGATCTTAGAATTGTTGAGCTTCACTCAGTCCTCAGAGAGCTCTGTCCTCTGCCCCTTAGAAACAGGTAGGCTCACACACGAGTCCCAGGAGTCCCCCCAGGAAAAGATAAATATGAACGCCACACTCTGTTTTGTTTCAG
Seq C2 exon
ACAAGTGCATGCTGTGCTGGCTTCTTTGGCCCACAATGCCAAGCCTGCCCTGGGAAAGGTCAGAATGTGTGCTCTGGGAATGGCTTCTGTCTGGACGGCGTGAATGGCACTGGCACATGCGAGTGCGAGCAGGGCTTCAATGGGACGGCCTGTGAGACCTGCACAGAGGGGAAGTATGGTATTCACTGTGACCAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000035459:ENSMUST00000035288:37
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:
NO
A:
NA
C2:
PF0000822=EGF=WD(100=47.0)
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:
AGTGAGACGAGGAAATGCATCT
R:
GGTCACAGTGAATACCATACTTCCC
Band lengths:
286-1532
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