MmuINT0155290 @ mm10
Intron Retention
Gene
ENSMUSG00000006342 | Susd2
Description
sushi domain containing 2 [Source:MGI Symbol;Acc:MGI:1918983]
Coordinates
chr10:75642463-75643991:-
Coord C1 exon
chr10:75643874-75643991
Coord A exon
chr10:75642671-75643873
Coord C2 exon
chr10:75642463-75642670
Length
1203 bp
Sequences
Splice sites
5' ss Seq
CAGGTATGC
5' ss Score
9.37
3' ss Seq
CACGGGGCTTTCTTCTCCAGGTG
3' ss Score
10.99
Exon sequences
Seq C1 exon
ATCTCTGAGCCACTGTGCTGCCTGCTGGTTGCAGACACAGGGCACACCATGAAGCTGGCCCTCCTGCCTTGGATTTTGATGCTGCTCTCAACAATACCAGGCCCCGGGTTCACAGCAG
Seq A exon
GTATGCCCCCACTTTGTCCTTCTGACCTCCCTGTTCATCTGCCTGATCAGCCAGGCCCTAAGCAGACACCCCTCTGGGCTCAGCTGTCTATCCATCTGGCAGTCCATCTGTGACTACACTGGGGAGTACTGGGAAGAAACTGGGGGGGTGGGGGGGGCTCCTGGATCTAGACACTTCTGGTGGAGATGGGAGGTCTGAACCAAGCTCATTCTGCACTCACATAAGGGCCTGGGAGGGAATCCCGGAAGACCAGAGCCTGCAGCCCAGCCTCTGTGAAGGGTGCAATCACACAGGGAACCCCCTGCCTCTCATCTGTCCCTGTGCTGGTCCTTCTCGGCGCAACCAAGAAAGTCTAGCAGGAAGGATGAGCCTAGAGCCATGGCCTTTCCCTGAGCTGAGCTGGGAGTTAACCAGCCTGCAGTCTCCTGCTTCACACAAGTGCCACCACCCTTCTGGTACTTTATCTCATGGCATCTTGAAGCATCTTCCCACACCCCTTGCAGTCGTTAAACCTTAGCCGATAAATATTTATTGCTGCTCCGGAGTATAAGCTTAGTGAGGTGGTCTAATGGCTTAGACCGCAGCCCGGCTCCTGGTGGATCTCCATCAAGGGTCTGGGGAAGGTGTGGTCTGGCCTGGGAATTTGTACCTCACCCCAGTCTCCACTTTTCAGCTCTGGGGCTGAAGTACAGCCCTACCACAGGTCTCCACAGCCCACAGAGGAAGTGGGCTGAACAGCTAGGCCTAGACAGGATGTTCCACAGTTTCTATGGGGTATTCCCAACTACACTGTGCTGCAACCCTCACTGGAATGTCCCCTCCTATCCCCTAAAAAGGGAGTGTCCTGGCTGCCTTCTCAGAGGGTGGGGCTCTCTGAGATTCAACTGTGTCCCACCCCCAGAAAGAGATGGGACAAGCTCAACCCAGATACCATTCCCTCCCCGGCCTTCAGTAGGACTCTTGGTGACTATGTACCCTATCAGAAAGCACGGGGACCCTTTTTTAGCTGTGAGGACCCACAAAGCCACTCCATTACCTGTGCTAAAATGGAGCCCCGCCCACAGAGCCGGTGGCTTTCCACCATGCCACTTGGTAGCCATAGCAATCCCTGGTCTGTCTCATGGACGCTTCTCACAGGCTCCAGGGGAAACGGGCCCTGTTGGTCAGGCAGCTGACCCTGGGACACGGGGCTTTCTTCTCCAG
Seq C2 exon
GTGCCCAGGGAAGCTGTTCCCTGCGCTGCGGGGCACAGGATGGACTCTGTTCCTGTCACCCAACCTGCTCGGGCCTTGGCACCTGTTGTGAAGATTTTCTGGACTACTGCCTAGAGATTTTACCCTCCTCAGGGTCCATGATGGGTGGCAAAGACTTCGTGGTGCAACATTTAAAGTGGACTGACCCTACTGATGGGGTCATTTGCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000006342:ENSMUST00000095541:1
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion (1st CDS intron)
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF0103312=Somatomedin_B=WD(100=58.6)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
ATCTCTGAGCCACTGTGCTGC
R:
CTGCAAATGACCCCATCAGTAGG
Band lengths:
326-1529
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