RnoINT0146338 @ rn6
Intron Retention
Gene
ENSRNOG00000033110 | Svep1
Description
sushi, von Willebrand factor type A, EGF and pentraxin domain containing 1 [Source:RGD Symbol;Acc:1588987]
Coordinates
chr5:75187425-75187902:-
Coord C1 exon
chr5:75187726-75187902
Coord A exon
chr5:75187510-75187725
Coord C2 exon
chr5:75187425-75187509
Length
216 bp
Sequences
Splice sites
5' ss Seq
AAGGTACAC
5' ss Score
7.56
3' ss Seq
AGTTTGTTCCCTCCTTACAGCCA
3' ss Score
9.24
Exon sequences
Seq C1 exon
AACCTGTTAAATGTAAGGCTCCAGAAAATCCAGAGAATGGCCACTCTTTGGGCAAGATTTATAGCGTGGGTGCTGAAGTCACATTTTCCTGTGAAGAAGGGCACCAGCTGGTGGGAGTGAGAAAAATCACGTGTTTGGAGTCTGGCGAGTGGGATCACCTCAGACCATCCTGTGAAG
Seq A exon
GTACACTGAGAAAATGGCCATGATCACTGTATTGGGCGGTTCTAGAAAGATAAAATGGTTGGTGTGGAAAGCTCTAGGCCATGTCAGTCTTTCTTCTGAAAGCCAGGAATTGGGCTCACGTTTAAACATGACAAGGGGATAAAATTTGGAAGCTGGAAGCTTTCAGAGGGCTTTGCACAGTTTCAGATAACCACACAGTTTGTTCCCTCCTTACAG
Seq C2 exon
CCATTTCCTGTGGTGCCCCACCTGTTCCTGAAAATGGCGGTGTTGACGGGTCAGCGTTCACATATGGCAGTAAGGTGAGGTACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000033110:ENSRNOT00000047200:33
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=0.000
Domain overlap (PFAM):
C1:
PF0008415=Sushi=WD(100=90.0)
A:
NA
C2:
PF0008415=Sushi=PU(46.3=86.2)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Mouse
(mm9)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
ACCTGTTAAATGTAAGGCTCCAGA
R:
CTGTACCTCACCTTACTGCCA
Band lengths:
261-477
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]