MmuINT0155303 @ mm9
Intron Retention
Gene
ENSMUSG00000006342 | Susd2
Description
sushi domain containing 2 [Source:MGI Symbol;Acc:MGI:1918983]
Coordinates
chr10:75104870-75105415:-
Coord C1 exon
chr10:75105208-75105415
Coord A exon
chr10:75105022-75105207
Coord C2 exon
chr10:75104870-75105021
Length
186 bp
Sequences
Splice sites
5' ss Seq
CAGGTGGGG
5' ss Score
6.92
3' ss Seq
CACCCATCTCTGTCCCTCAGGTT
3' ss Score
10.53
Exon sequences
Seq C1 exon
GTGCCCAGGGAAGCTGTTCCCTGCGCTGCGGGGCACAGGATGGACTCTGTTCCTGTCACCCAACCTGCTCGGGCCTTGGCACCTGTTGTGAAGATTTTCTGGACTACTGCCTAGAGATTTTACCCTCCTCAGGGTCCATGATGGGTGGCAAAGACTTCGTGGTGCAACATTTAAAGTGGACTGACCCTACTGATGGGGTCATTTGCAG
Seq A exon
GTGGGGGGTGGGGACCTAAACAGCTAGGTCATTAGGGCTCCTACACGCTCAATCCCAAGCATAGAGTGGGGGAGCTGGAGGTAGCACCCTGGGACCGAGGGCAGGCAGGAGAACACTGGCGCACCTAGCCTAACCCATTTCCATAGCTTTTGGCTCAGGCTGCCTCCACCCATCTCTGTCCCTCAG
Seq C2 exon
GTTTAAGGAGAGTATCCAAACCCTTGGCTATGTCGACGACTTCTATCAAGTGCACTGCATATCACCCTTGCTCTATGAAAGCGGCTATATTCCCTTCACCATATCAATGGACAATGGCCGCTCCTTCCCTCATGCAGGCACTTGGCTAGCTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000006342-Susd2:NM_027890:2
Average complexity
IR-C
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:
PF0103312=Somatomedin_B=WD(100=58.6)
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Rat
(rn6)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TCTGTTCCTGTCACCCAACCT
R:
AGCCGCTTTCATAGAGCAAGG
Band lengths:
249-435
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development
Other AS DBs: