MmuINT0155294 @ mm9
Intron Retention
Gene
ENSMUSG00000006342 | Susd2
Description
sushi domain containing 2 [Source:MGI Symbol;Acc:MGI:1918983]
Coordinates
chr10:75103520-75104345:-
Coord C1 exon
chr10:75104178-75104345
Coord A exon
chr10:75103695-75104177
Coord C2 exon
chr10:75103520-75103694
Length
483 bp
Sequences
Splice sites
5' ss Seq
CAGGTGGGG
5' ss Score
6.92
3' ss Seq
AGGTTTTTCTCTTCCCCTAGGAA
3' ss Score
10.86
Exon sequences
Seq C1 exon
CACATCCCTACAAAGTGTCTGAATCCGAGAAGAGCCAGCTGGTGAACGAGACCCATTGGCAATACTACGGCACTTCAGACACCAGGGGAAACCTCAACCTCACCTGGGACACTTCAGCGCTGCCCACGCCGGCCGTCACCATTGAGCTGTGGGGCTATGAGGAGACAG
Seq A exon
GTGGGGCCTGCCAAGGGCTGGATGGGGGTGTCTGGAACTTTCAGACACTCAGATGTGAGAGGAGGAGTCTCAGGCGGGGATGGAGGAAGGGGTGTGGAAAGGAAAAAGAGATTTCGGTCTGGTGGTATAGATCAAGGAGGGGTTTGCAGCTAGACAGAAACAGCAGTGACTGCTGGCATGCATGGTAGGCCCCACAGACCGTGGGAATGTTGGATGCTGTGACTATCGAATAGATGGTATGTAGTGAAGACAGAAGCAGCCACCTCAACCCTATCTCCTCTAAGCCTGACATGGAGCAGGGCCAGTGATTCAAGCGCGTCCCCGCTGGTCACACAAGCCAGGGACCCTGCTTAAGCATCAGAACATGACAGCCCACGGGGGAGCATCTATTACTTTCTTTCCTTCATTCAGGCTATCAGTGCCAGAGACTGAGGGAAGGGAGGGATCCTTGGAGGGCTGACCAAGGTTTTTCTCTTCCCCTAG
Seq C2 exon
GAAAACCCTACTCTGGGAACTGGACCTCGAAGTGGTCCTATCTGTACCCTTTGGCTACAAACATCCCCAATACCGGCTTCTTCACTTTCACCCCCAAACCCGCATCACCTCAGTACCAGAGGTGGAAAGTGGGTGCTCTGAGGATCAGCAGCAGCAGGAACTACCCAGGAGAGAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000006342-Susd2:NM_001162913:2
Average complexity
IR-S
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:
NO
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:
CACATCCCTACAAAGTGTCTGA
R:
TCTCTCCTGGGTAGTTCCTGC
Band lengths:
342-825
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development
- Muscular differentiation time course
- Spermatogenesis cell types
- Reprogramming of fibroblasts to iPSCs
- Hematopoietic precursors and cell types
Other AS DBs: