MmuINT0152905 @ mm9
Intron Retention
Gene
ENSMUSG00000029797 | Sspo
Description
SCO-spondin [Source:MGI Symbol;Acc:MGI:2674311]
Coordinates
chr6:48408105-48409165:+
Coord C1 exon
chr6:48408105-48408239
Coord A exon
chr6:48408240-48408968
Coord C2 exon
chr6:48408969-48409165
Length
729 bp
Sequences
Splice sites
5' ss Seq
GAGGTCAGG
5' ss Score
4.94
3' ss Seq
CACTTTTTTAATGCCACCAGGCA
3' ss Score
5.7
Exon sequences
Seq C1 exon
GCCAGGCCGTAACAGTGAATGGAGTGAGCATAAGGCTCCCCAAAGTCTATACAGGCCCCGGCCTGAGCCTGCACCATGCTGGCCTCTTCCTGCTGCTGACAACACGCCTGGGTCTCACTCTGCTCTGGGATGGAG
Seq A exon
GTCAGGCTCTGTCCTTCTGCCCTTAGCCCACACTAGGCCTTCACGCTGGCAGCTGGATTTCCCCCAGACCCTTCTTCCTCAGTGCCTGCCAAGCTCTGAGGTAGAGGCGGACCCCTGAGCCCACTCAGGACCCATCTCCAGTATGACAGCCAAGCCAAGATATCTGCTGCCTCCCACCTTTCCACCCTCTGCCCGGTGCCCCTCACCCAGTGGCCACCCATGTCTTAGAGCCTCTAAAAATGGTTGGAGCTTCCATATTATATTTTCATAATTGTGTTTCTCTTCATTTTACAAGCATGACCACCCCACCGAAGAAACATTTAGAAAATATCAAGTTTTAGGAAGAAATGAAAATAGACCAGCTGATATCGCACTACCCAAGCAGTTGGCGTTTTAGAAATATAACTGTTAGTGAGGAACTGTGGGAAACCAAAATAACCCTGTGTGGATCTGGTCCTCTCAGCTGGGCTAGCCTAGAGTTTCTTGCCACAGAAGAGTCTCTCAGCCCATCCAGAAGCCAGGTCCCACCTGAATCTCGCCTGGTGGGGAGATTTTGCTGTCTTTCAGCCTAGAGTTAGTTAGGAAACTAGCTTCCTAGTTGGCTCCTAGATGTCACTCTTCAGTTGTCCCCTGTTGAGTAGGGCTCCTGTGCAGGAAGCTACTATACCCATGTGTCTTTTTGCCCCAGCCTGCTGAGGGCCCTGGAAGTCACTTTTTTAATGCCACCAG
Seq C2 exon
GCACCCGGGTGCTGGTACAGCTGTCCCCCCACTTCCATGGTCGTGTGGCCGGGCTGTGCGGAAACTTTGATAGTGATGCCAGTAATGATCTGCGGAGTCGCCAAGGAGTCCTGGAGCCCACAGCAGAACTGACTGCGCATTCCTGGCGCCTCAATCCCCTGTGCCCTGAGCCAGGAGACCTGCCACATCCTTGTACC
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000029797-Sspo:NM_173428:21
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=0.000
Domain overlap (PFAM):
C1:
PF0009420=VWD=FE(30.0=100)
A:
NA
C2:
PF0009420=VWD=PD(24.0=56.2)
Main Inclusion Isoform:
NA
Other Inclusion 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:
CCAGGCCGTAACAGTGAATGG
R:
GGTACAAGGATGTGGCAGGTC
Band lengths:
331-1060
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
Other AS DBs: