MmuINT0152958 @ mm9
Intron Retention
Gene
ENSMUSG00000029797 | Sspo
Description
SCO-spondin [Source:MGI Symbol;Acc:MGI:2674311]
Coordinates
chr6:48401061-48401416:+
Coord C1 exon
chr6:48401061-48401219
Coord A exon
chr6:48401220-48401336
Coord C2 exon
chr6:48401337-48401416
Length
117 bp
Sequences
Splice sites
5' ss Seq
AGGGTATGT
5' ss Score
8.34
3' ss Seq
TTGGCTTCAACTTTTCTCAGATG
3' ss Score
6.4
Exon sequences
Seq C1 exon
GGATGAGCCTGCAGTGGCAGGGAGATTGGCTGGTGCTCTCTGGGGGCCTGGGGGTGGTTGTGAGACTGGACAGGTCCAGTTCCATCTCCATCTCCGTGGACCATGAGTTCTGGGGACGGACACAGGGCCTCTGTGGGCTTTACAATGGCAGGCCAGAGG
Seq A exon
GTATGTGAGGTGTCTGGAGGAGGGATGGAGGGAGGGAGGGCAGGAGAGAGGGAGGGGGAAGGAAGGGAGGGAAGAGACGTAGGACCCAGGTTTAGCTTTGGCTTCAACTTTTCTCAG
Seq C2 exon
ATGACTTTGTGGAGCCGGGAGGGGGATTGGCTACGCTAGCTGCTACCTTTGGGAATTCATGGAAGCTCCCTGGCTCTGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000029797-Sspo:NM_173428:7
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
No protein impact description available
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.037
Domain overlap (PFAM):
C1:
PF0009420=VWD=FE(35.8=100)
A:
NA
C2:
PF0009420=VWD=PD(11.4=29.6)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Rat
(rn6)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CAGTGGCAGGGAGATTGGCT
R:
CAGAGCCAGGGAGCTTCCAT
Band lengths:
226-343
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
Other AS DBs: