RnoINT0143964 @ rn6
Intron Retention
Gene
ENSRNOG00000025848 | Sspo
Description
SCO-spondin [Source:RGD Symbol;Acc:1549716]
Coordinates
chr4:78113420-78113832:+
Coord C1 exon
chr4:78113420-78113472
Coord A exon
chr4:78113473-78113625
Coord C2 exon
chr4:78113626-78113832
Length
153 bp
Sequences
Splice sites
5' ss Seq
AAGGTGAGG
5' ss Score
9.16
3' ss Seq
CCATCCCCATGTACCCCAAGGCC
3' ss Score
4.72
Exon sequences
Seq C1 exon
CTCCTGTGTCTCTGGGCTCATCACCAACTGCAGCTCCTGGCCTTGTGAGGAAG
Seq A exon
GTGAGGAAGGCTTCTCACTCCTCATCCCTGGCAGCCATGGGTCTGCGTTGGGGTAGGAGACAAGCCTCAGCAGGGCCGAGGCAGAGTCGTGGTAATTCCCCACGTTGCACATCATCCTCTTCTCTTGTTCTCTCCATCCCCATGTACCCCAAG
Seq C2 exon
GCCAGCCTGCATGGTCATCTTGGACTCCATGGAGTGTGTGTTCAGCCTCTTGCAGCCCTGCCAGACGCCACCGACGCCGCTTCTGTGTCAGGCCCTCTACTACAGCTCCCTTCAGCTTGGATCTGCCGACCACAGTGGCTGCCCCCACAATGCTCTGCCCAGGCCCTGAGGCTGAGGAAGAGCCATGCCTCCTGCCAGGATGTAATC
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000025848:ENSRNOT00000035906:63
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=0.014
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF0009014=TSP_1=WD(100=90.0)
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
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TCCTGTGTCTCTGGGCTCATC
R:
AGGAGGCATGGCTCTTCCTC
Band lengths:
245-398
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]