MmuINT0155297 @ mm9
Intron Retention
Gene
ENSMUSG00000006342 | Susd2
Description
sushi domain containing 2 [Source:MGI Symbol;Acc:MGI:1918983]
Coordinates
chr10:75102579-75103019:-
Coord C1 exon
chr10:75102934-75103019
Coord A exon
chr10:75102848-75102933
Coord C2 exon
chr10:75102579-75102847
Length
86 bp
Sequences
Splice sites
5' ss Seq
CAGGTGAGC
5' ss Score
9.6
3' ss Seq
CCTCCTCCTACCCTACCTAGCCC
3' ss Score
6.66
Exon sequences
Seq C1 exon
ACTGACTATGGTTGTGACATTGAACATGGCAGCGTATGCACCTACCACCCAGGGGCTGTGCACTGTGTGCGCTCTGTGCAAGCCAG
Seq A exon
GTGAGCTACCCGATCAGGGATAAGGGATGGGCAGGGCTTGGGGGCAGCTGCCAACAGTGGCCCTGACCTCCTCCTACCCTACCTAG
Seq C2 exon
CCCCAGGTATGGCTCAGGCCAGCAATGCTGCTACACGGCAGCAGGGACACAGCTCCTGACTTCAGACTCGACAAGTGGCAGCACCCCTGACCGTGGCCACGACTGGGGTGCACCCCCATACCGGACTCCTCCCCGTGTGCCCGGCATGTCTCATTGGCTCTATGACGTCATCAGCTTCTATTACTGCTGTCTTTGGGCTCCTGAGTGTCCCCGTTATATGAAGCGCCGGCCCTCCAGTGACTGCCGCAACTACAGACCCCCACGCCTGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000006342-Susd2:NM_001162913:5
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=0.231
Domain overlap (PFAM):
C1:
PF0378212=AMOP=FE(19.2=100)
A:
NA
C2:
PF0378212=AMOP=PD(52.1=83.5),PF0009420=VWD=PU(0.1=0.0)
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:
TATGCACCTACCACCCAGGG
R:
GAGGAGTCCGGTATGGGGG
Band lengths:
183-269
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: