RnoINT0146327 @ 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
chr5:75204861-75205773:-
Coord C1 exon
chr5:75205660-75205773
Coord A exon
chr5:75205063-75205659
Coord C2 exon
chr5:75204861-75205062
Length
597 bp
Sequences
Splice sites
5' ss Seq
TCGGTAAGA
5' ss Score
10.53
3' ss Seq
TCGTCCTCTCCCATCCCCAGGTG
3' ss Score
11.23
Exon sequences
Seq C1 exon
GTCAAATATGTGAAGAAAATATAAATGAGTGCAGCTCCAGCCCATGCTTGAATAAAGGAACCTGCACTGACGGCTTGGCGAGCTACCGCTGCACCTGCGTGAGCGGATACGTCG
Seq A exon
GTAAGACGTGCACGTTTCCTCCCTTTCTCCAAAATTCTGTGAATAAAGGTCGCTGCACTGACCAATTGATGTGTCGTGTAAATATTATGTTACGTAATGCAATGTCTAAGTGTTACACTTGGGTTTTATGAACATACTGTTGGAGACAGGTCGTGCAAATGTTGTTCATAAACTGAAGGTAAAAGACACACAGTAATGTATCTTACAAACTGATGAAAGAAATGTGCATAAAGAAACATGTACTTAGTTGTTAGGGAAGAAGTCTGAGGGGGGAAATCCTAGGGGAGGAAACACATGAGGCCAAAGAAACAGGAAAAAAAACAGAACTAGATTTATCATCCTTTTGAACGTTGTTTTAGCTCAATGCCCGTTGCTGAGCATAGTATAGAAAAAATGATAAAATGAGCTGAGTTTAGAAACTGCAGAATCCAGAAATGTCTCAGCAAAACCAGAGCCATTACAGGCTGCATCGTGAGCAGGTTTAGTGGCAGTGGCTCTGCAGCGTTCTGCCTTAGGTGCAGCCAGGGAGTCACATGTGGCTTGCTTGTCCTCTGGAGGGAACCCGTCCAGCTCTTTCTCGTCCTCTCCCATCCCCAG
Seq C2 exon
GTGTGCACTGTGAAACAGACGTCAATGAATGCCAGTCGAGCCCCTGCTTAAACAATGCCGTTTGTAAAGACCAAGTTGGGGGTTTCTCGTGCAAATGCCCACCTGGATTTTTGGGTACTCGGTGTGAGAAAAATGTGGATGAGTGTCTCAGCCAGCCATGCCAAAACGGAGCCACTTGTAAGGATGGCGCCAACAGCTTCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000033110:ENSRNOT00000047200:23
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:
PF0000822=EGF=PD(6.5=5.1),PF0000822=EGF=PU(90.3=71.8)
A:
NA
C2:
PF0000822=EGF=PD(6.5=2.9),PF0764510=EGF_CA=WD(100=57.4),PF0000822=EGF=PU(61.3=27.9)
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:
GTGAAGAAAATATAAATGAGTGCAGC
R:
GCTGTTGGCGCCATCCTTAC
Band lengths:
302-899
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]