RnoINT0143965 @ rn6
Intron Retention
Gene
ENSRNOG00000025848 | Sspo
Description
SCO-spondin [Source:RGD Symbol;Acc:1549716]
Coordinates
chr4:78113626-78114126:+
Coord C1 exon
chr4:78113626-78113832
Coord A exon
chr4:78113833-78113955
Coord C2 exon
chr4:78113956-78114126
Length
123 bp
Sequences
Splice sites
5' ss Seq
ATCGTAAGT
5' ss Score
10.44
3' ss Seq
TTCCTCTTCTGCTCTCTCAGAAG
3' ss Score
7.96
Exon sequences
Seq C1 exon
GCCAGCCTGCATGGTCATCTTGGACTCCATGGAGTGTGTGTTCAGCCTCTTGCAGCCCTGCCAGACGCCACCGACGCCGCTTCTGTGTCAGGCCCTCTACTACAGCTCCCTTCAGCTTGGATCTGCCGACCACAGTGGCTGCCCCCACAATGCTCTGCCCAGGCCCTGAGGCTGAGGAAGAGCCATGCCTCCTGCCAGGATGTAATC
Seq A exon
GTAAGTGGCCCTTTAAGCTGATGCTTGCCTGGGTGTGGCCATCTCTGGGGTACCTCATCCTTGTACCAGCAGCTTCCAGTAGCCTCAAACCTTTTCACATTCCTTCCTCTTCTGCTCTCTCAG
Seq C2 exon
AAGCAGGGGTCTGGGGTCCTTGGAGTCCCTGGTCTGGCTGTAGTCGGAGCTGTGGAGGAGGCCTGCGGAGCCGGACCCGGGCTTGTGACAAGCCACCACCCCAGGGCCTGGGGGATTTCTGTGAGGGACCTCAGGCCCAGGGGGAGGCCTGCCAGGCCCAACCGTGCCCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000025848:ENSRNOT00000035906:64
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.014 A=NA C2=0.017
Domain overlap (PFAM):
C1:
PF0009014=TSP_1=WD(100=90.0)
A:
NA
C2:
PF0009014=TSP_1=WD(100=87.9)
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
(galGal4)
No conservation detected
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TGTCAGGCCCTCTACTACAGC
R:
TCCCTCACAGAAATCCCCCAG
Band lengths:
250-373
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]