MmuINT0153439 @ mm10
Intron Retention
Gene
ENSMUSG00000035459 | Stab2
Description
stabilin 2 [Source:MGI Symbol;Acc:MGI:2178743]
Coordinates
chr10:86861368-86863577:-
Coord C1 exon
chr10:86863448-86863577
Coord A exon
chr10:86861518-86863447
Coord C2 exon
chr10:86861368-86861517
Length
1930 bp
Sequences
Splice sites
5' ss Seq
AGGGTGAGC
5' ss Score
7.75
3' ss Seq
GCTGTTTCTTTCCCTTCCAGCCT
3' ss Score
9.74
Exon sequences
Seq C1 exon
GGTGTGAGGAAGAAGTGTATCTACAACCCGTTACCTTTCAGGAGGGATGTGGAAGGCTGTCAGAACCTGTGCACCCTGGTGGTCCATGTCCCGCGGTGCTGCAGTGGTTACTTCATGCCAGACTGTCAGG
Seq A exon
GTGAGCTTACTCCTTCTTGCCATTCTAAAAAGCTGTGGGCAGGTTGTACTTTTTAAAGTACCCAAGTTCTAAAGAGGTAGGGAAACTCCACCCTCACGGGTCCCAGGCCGGAGCCCAGCTCACTGAACAGTTGTGTGTTCGGCTCTTCCTGTTTGGAGTTTTCCTGAGATCCTACTTGTACATCCACTTTCATGTTTAAAACCAGACCACAGCTGGGCTAGAAGCACGGGCCTGTAACCCAGCAAGTTAGGAGGCTGAAGCGAGAGGACCACAAGCTCAGGGTCTACCTGAACCACAGAGTAAGGGCATGCAAGAACAGCCTGGGTCACTTAGATGCTGTCTCAAAATAAAAAGGCTGGGATACAGTTCCTAGAAGCATGTGGCCAGCAGGCATAAGTCCCTGGGCTTAATTCTCAGGACTGCAGAATATAAACAAACAAACAAACAAACAAATAAGCCCAATAAAATTAGAACCCAGACACTTCCCCCTGGTGCTTTAAAATACATGCCGTATCATCTATTGCTGGTTCTGCCATGTCTGTCCCGTTGGGAAGCATGCCTGCACAAGTGCTTTGACATGATTCTGGCTGGGAACAGTGATGTACTGGTACAGTTTTGTGGACCACGAATTCCCTTTAAGTCCACAGTTACAGGGGTAGAGCATCATCCTCTCTTCTTTGGCTCCTTGTCAAAGGGAGTTTGATCTCAGTTTGGAAACCTTGACACCAGCAGCGATGTTTAACGAAGGCCTACAAGGCACGCCCCATCTGCTGGACTTTGCTCTAGGTAGGCACATTGTAGGCACATCATTGAATACGATGCGTACTGGCACATAGTCATGATAACAACTGCACTGCCAGCCCCTTTAATAGATGAGAAATAGAAGCTCAGGAAAGTTAAGACTGACTCATGATGTTCCCCTGCCATGTGTGTTCCACTCATGGTCTAGAGCAGTGGTTCTCAACCTTCCTCATGCTGAGACCTTTTAATACAGTTCCTCATGTTGTAGTGACCCCCAACCATAACACTATTTTCACTGCTACTTCATAGCTGCCATTTTGCAACTGTTAGAAACCATAATGTAAATATATGATTTGCAGGATATCTGATATGTTACCCCTGTGACACCTGATCCCTGACCCCCAAAGAGATCAGGAACCCACAGATTGAAAATCATTGGTCCACAGGAACACTCTGGGCTGAATAGTCACCCAGCTCGCAGGCTCCATCACTAAAATGTGGAGCACTCCTAAAAGACCATTAGAAACTTTTGCATTTGTTTATCCCTGCAGATTATAAAAATATCCTCAGAGGTCTAGAGCTGCAGCTCAGTTGGAATGCACAAGGCCCTGGGTTTGATTCCCAGCACAGCATATGAGGTGTTAGAGCTTAGAGCACACACCTGTAACCCCAGCACTCAGGAAGTGGAGGCAGGAGGATCAAATGTTCAAACTAAACCTTGGCCGCATAGCAAGTTCAAGACCAGCCTAGGATACATAAGATTTTGTTAAATAAATAAAATTTTTAAAAAATTTTAATATTCTTAGAATATGCTACCTGGTCCTTGCAGTAATAGCGTGGTATAGGTCAGGCTGGCACCGTGTCATGGTCATTATTGTCATGGCCACCATCTCTTAGAGCCATAAAGAACTAAAGCTCAGAGCAGGTTCCCCACTTGGCCCAGGCCTCCTCAAACCCAGGTCTCCTGACCCCGGTTACGGAATACAGCCCATGGCCCTGTCGAGGTAGAATCAGATCAGACACTTGATACTTGGGTCCCAAAGGCCAGTGGCTCTCCCTGTATGTGCATTGACACCCCCCCCCCCCCCGAGCACTGAGAGGCTGGTAGAATTAACAGTGTGTTTACAGCAGTGCTGAGTGGTCCTGGTCTTGGAGACTGTGTGGTCACTGCTGTTTCTTTCCCTTCCAG
Seq C2 exon
CCTGCCCTGGAGGACCAGACACACCGTGTAACAACCGGGGCATGTGTTATGATCAGTACAAACCCACAGGACAGTGCCAATGTCATACTGGTTTCAACGGGACAGCCTGTGAGCTCTGCTTGCCTGGGAGATTTGGTCCTGACTGTCAAC
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000035459:ENSMUST00000035288:55
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:
PF079748=EGF_2=WD(100=70.6)
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:
GGTGTGAGGAAGAAGTGTATCT
R:
TGACAGTCAGGACCAAATCTCC
Band lengths:
278-2208
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