RnoINT0143936 @ rn6
Intron Retention
Gene
ENSRNOG00000025848 | Sspo
Description
SCO-spondin [Source:RGD Symbol;Acc:1549716]
Coordinates
chr4:78098214-78098826:+
Coord C1 exon
chr4:78098214-78098268
Coord A exon
chr4:78098269-78098721
Coord C2 exon
chr4:78098722-78098826
Length
453 bp
Sequences
Splice sites
5' ss Seq
CTGGTGAGT
5' ss Score
10.1
3' ss Seq
ATCCCTGGGTCTCTGCACAGGAA
3' ss Score
8.04
Exon sequences
Seq C1 exon
AGCTGGGTCCTGGTGGAAGGAATGGGAGAATCGTGTTGCCACTGTGCGTTACCTG
Seq A exon
GTGAGTGGGACTCGAGGGCGGCAGAAAAGCCTCAGGAAGAGCCAAATCCACCGAAGGCTGTGGCAGGGAGCCATGTGGGTTTCCTTACCCTAACGGTGTATTTACAAACTGTTGACACTAGCGCTCACCTAGCGTGTACAGTTACGTAGGTTGTTCCCTGCGCGATGAGTCTCTGCCCAACGCCTACATAGGTTAGAAACTGCACCTGTTCTGCACTCCTCATCCGGAAGTTGTTTTAGCCTGGGGATTTTATTCTGTTCTCTAAATAGTGAGTGGAGGCCAAAAGCCCCCTTTCACACACAGAGAAGGAGGGACCCTTCCTAGCTGGAGTTTGTCCCTGAGAAGCCACGAGAGGGAACATGTTCCAGGAAGCGTGAGGGGGCCTGAGCTCTGGGTTGGTGGCTGTTGGCAGCCTCTCCTACTTTTTCTCCTGATCCCTGGGTCTCTGCACAG
Seq C2 exon
GAAAGAACCAGACAATGATCCCAGTGACCACTCCTGCCCCTGTCCCCACCCCCAGCCCTCAGATTGGAGCTTCTCTGGTCACCTACGTTCTGCCTCCCATGTCGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000025848:ENSRNOT00000035906:38
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.278
Domain overlap (PFAM):
C1:
PF0009313=VWC=PD(24.1=73.7)
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Human
(hg38)
No conservation detected
Mouse
(mm10)
No conservation detected
Mouse
(mm9)
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:
No suggested primer sequences
R:
No suggested primer sequences
Band lengths:
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]