RnoINT0143906 @ rn6
Intron Retention
Gene
ENSRNOG00000025848 | Sspo
Description
SCO-spondin [Source:RGD Symbol;Acc:1549716]
Coordinates
chr4:78132836-78133654:+
Coord C1 exon
chr4:78132836-78132986
Coord A exon
chr4:78132987-78133503
Coord C2 exon
chr4:78133504-78133654
Length
517 bp
Sequences
Splice sites
5' ss Seq
AGGGTGGGT
5' ss Score
5.37
3' ss Seq
TCTCAAAATTCTGTTTGCAGGTG
3' ss Score
9.54
Exon sequences
Seq C1 exon
GAACCCTACCTGCAGAGCCAGTGTGACTGCTGTAGCTACAGACTGGATCCGGACAGCCCCGTGCGGATCCTGAACCTCCTTTGCCCTGATGGCCGCACGGAGCCAGTGTTGTTGCCAGTGATTCACAACTGCCACTGCAGTGCCTGTCAGG
Seq A exon
GTGGGTCTGGCCTGGGAGGAGAGGGCAGGGCTCCTGGTGGGCAGGGCTCCACAAGACCGGCTGGGACCAGGCCAGACTTCTCCTTAAGGAGGCCTTAGGAATGTGCACAGTGCACCATCCCATTCTTCCTCGGGTTTTGCCAGTCCTCTCTGATCCTTTCCCCTCCTCGACATTCTGCTTTTTTCTTTTCCAATTACACGTACACTTGGCTCAAATCTCAGTCTTCCACTGAGGTCAGTACTCATAATGCCATCCCTTAAATGGGCCCGGCATCTACACATGCTTGCAGGAAGAACTCTGGAAGGGCAGGCCTGGGAGGTAGCTGGCAGATTAAGTTACGTATGTGATGTGTACTAACTGAAGGACAGCTCAGCCTAGGAGGGGCCAGAGCTGGCTGCAGTTCCTTCAGCTTCCTTCAGGCAGCCCTGTCTCATCCCCCACTGCTGCTGCCCTGCCCCATCCTGTCTCACTTGACCGTGCTGCCTCTCATTGCACCATCTCAAAATTCTGTTTGCAG
Seq C2 exon
GTGGTGAGTTCTCAAAGCACTGACAGGCTCTGCTGGATGCTGCCACTGTTGTCTCCCCTGTGAGCACAGGGCTCGGTGGCACCCTCTACTTCCTTCTGTGCCCAGTTAACGCCTCTGACCTGTGAACCATGCTGTGGGGTTAGCACATTTC
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000025848:ENSRNOT00000035906:102
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Mouse
(mm9)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GAACCCTACCTGCAGAGCCAG
R:
GAAATGTGCTAACCCCACAGC
Band lengths:
302-819
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]