MmuINT0155301 @ mm9
Intron Retention
Gene
ENSMUSG00000006342 | Susd2
Description
sushi domain containing 2 [Source:MGI Symbol;Acc:MGI:1918983]
Coordinates
chr10:75100710-75101340:-
Coord C1 exon
chr10:75101092-75101340
Coord A exon
chr10:75100983-75101091
Coord C2 exon
chr10:75100710-75100982
Length
109 bp
Sequences
Splice sites
5' ss Seq
ACTGTGAGT
5' ss Score
7.94
3' ss Seq
AGTGACACCTGTCTCCCCAGGGG
3' ss Score
7.57
Exon sequences
Seq C1 exon
GCATGTTCCTGTCAGTGGCCGCTCAGGATAAGGTGTCAATCATGTTGTCATCGGGGGCTGGCCTCGAGGTCGGTGTACAAGGTCCTTTCCTGAGTGTGAGCATTCTGTTGCCTGAGAAGTTTCTGACCCACACCCGTGGTCTCCTGGGGACACTCAACAATAACCCCAGGGATGACTTCACCCTGCGCAATGGGCAGGTCCTGCCCCTGAATGCCAGTGCTCAGCAGGTGTTCCAGTTTGGAGCCGACT
Seq A exon
GTGAGTGACCCAGGGCAGGGAGGGAGAAGAGGGATTGGTCAGGGTGACACAGTGGGTCAAGGAGAGAAACTTGTCTGTGCCCACACAAGAGTGACACCTGTCTCCCCAG
Seq C2 exon
GGGCTGTTTCCAACACGTCTTCCCTGTTTACTTATGACTCTTGGCTTCTGGTCTACCAATTCGTGTACGGACCCAAGCACAACCCCAACTTCAAACCACTCTTCCCTGATGAGACCACACTCAGCCCCAGCCAGACAGAAGATGTGGCCAGACTGTGTGAGGGTGACCGTTTCTGCATCCTTGATGTGATGAGCACAGGAAGCTCGAGCGTGGGCAACGCCACCCGGATTGCCCACCAACTGCACCAGCACCGTCTGAAGAGCCTGCAGCCTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000006342-Susd2:NM_001162913:9
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=0.098
Domain overlap (PFAM):
C1:
PF0009420=VWD=PD(38.9=77.4)
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion 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:
GATGACTTCACCCTGCGCAAT
R:
GAAACGGTCACCCTCACACAG
Band lengths:
252-361
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: