MmuINT0152931 @ mm9
Intron Retention
Gene
ENSMUSG00000029797 | Sspo
Description
SCO-spondin [Source:MGI Symbol;Acc:MGI:2674311]
Coordinates
chr6:48419156-48420590:+
Coord C1 exon
chr6:48419156-48419217
Coord A exon
chr6:48419218-48420428
Coord C2 exon
chr6:48420429-48420590
Length
1211 bp
Sequences
Splice sites
5' ss Seq
TGTGTGCAC
5' ss Score
-14.41
3' ss Seq
ATCTTCAGGGGAGACAGCAGGTC
3' ss Score
-13.33
Exon sequences
Seq C1 exon
GGTCTGCCAGACACAGAGCCCCAGCAGCCCAAGCAGGAATCATCCTTGCCTGGTGCAGGTGT
Seq A exon
GTGCACAGACTCCAAACCCCTCCCCATGTCTCCGCCCTTGTCATCCCTTCCCCTTGTAGAGCAAAGGCAGTTCCTCCTAATTCTCCTAAGGCCAGAGAGCTACAGGGTCAAGAGACACCACTCACCAGGCACATGGCCAGGTTCTGACTTGCTCAGCCTACTAGACCTAGGATGTCAGATCTGAGGGGACCAAGACAGTTTGTAGGGCCATGCAATTGTCTCCATGGCTGCAGCCCCCAGCCCCTATTCTGAACCAGCCTCCGTTGAGATACCACCTGGCCCCATCTTTGTCTTTCTGCTCACCTAACCATGATGTTAGGTGTTATTCTAAAGTGTTTGGTGGCAATAAATGCCCTAAGTAGGCAGGAGAGTAGGGAGGGTGCCTATCTTAGGATACTTCTAAACAGTAAAAGCGATTCCCTACCCAGCATGTACCAGTTTCCCCTTGGCCACTGATCAGCCACCTGTAACATGGTCCCAATGTGGGGTGGGATGGGTGTGGATCACCAAAGGAGCAAGCTATACTGACTGCCCTGGGAGATATTGGTCAAACCACCCCAACCCTGTGCCTCAGTTTCCTCACATATGAGACTAGGAGGCCCTTCCCTATGCATTCTAGAAGTTGTTCAACAGTCTGGCTGCACCATGTCTTTGTGTCTTTTGTAGGAAAAAAAAAATCACATCTACAACATGTGGGCTCAAGGGATGAATCCTAGTCTCATTCTAAATCTGGTTCCAAAAAAAGGCTGTCTTTGAAAATGAATATTTTGGCAGAAAATGCACGTCTGGCTCTCCTTTTCACTACAGTTGTCAGGAAGCTCAAATCAAGTTTGTGTCTTCACATCAGTAGCAATGCCCCCATTCCGAGTCTCAGTCATGTTTGCTCCTTCTGCTGTTATGTTTAAATGGCTCCAGGTCTTTCTCACTTCTTAATACCTTATTTTACAGTGAACTCATACTGGGAAGTTGCTGTGTCTTCGTGCAGCTAGAGTACAGTATTAGATGACGTCTGTTTTTTCCCTTAACTCTCTTCTCATGCTCCTTGGGTGATATAAACCCTTTCTTTTTATCTGAGGAGTCCTGTGATAGCTGTGATTATCCTGCACCATGTGGGAATCAGACTTCTTCAGAGTCTGTCCCACCACCTCTCATAGGACAGGGAGCTGAGGCAATGACGTCTCACTCCCCTCCATCTTCAGGGGAGACAGCAG
Seq C2 exon
GTCTCATCCCTGCTTCTGAGGGTACTCTGCCTGTTTCAGGGCAGCCCATGCAGACACTGTCTGCTACCTCCACCTTCCCTCCTGGTGCCAAGAGCCTACACCCAGGAATGGCAGCTGTGACGGTGCATCCTCCACACTCAGTCACACCAGGAGCTCCTGTTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000029797-Sspo:NM_173428:45
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
No protein impact description available
No structure available
Features
Disorder rate (Iupred):
C1=1.000 A=NA C2=1.000
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Rat
(rn6)
No conservation detected
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TCTGCCAGACACAGAGCCC
R:
GAGCTCCTGGTGTGACTGAGT
Band lengths:
216-1427
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
Other AS DBs: