RnoINT0146336 @ 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
chr5:75190019-75190743:-
Coord C1 exon
chr5:75190570-75190743
Coord A exon
chr5:75190139-75190569
Coord C2 exon
chr5:75190019-75190138
Length
431 bp
Sequences
Splice sites
5' ss Seq
TCGGTGAGA
5' ss Score
8.51
3' ss Seq
GTGAACTGCCTCCGTTTCAGATG
3' ss Score
8.63
Exon sequences
Seq C1 exon
GCATTCGCTGTGGGCTGCCTCCCACCTTGGAGAATGGCTTCTATTCAGCCGAGGACCTCCATGCTGGCAGCACAGTGACCTATCAGTGCACCAGTGGCTACTACCTGTTGGGTGACTCCAGAATGTTCTGTACGGACAACGGGAGCTGGAACGGCATTTCTCCATCCTGTCTCG
Seq A exon
GTGAGATAAATGCTGGCTGCTGCCGTGTGGAGTCACATCCATGTTCCTTGGCAAACATTTACCACACATGTTAGGCTCTCCTGATATCACTGTGCTAAGTCCACCTCTCTTCCGCAAGCTCTGGGCAAGGGCTAATGGTAAAACAGATGTCTCTTCCAAGGGAAGCCAAAAATGGTCCTCAATTTTAGTCAAGTTCAATATTAAAACGGTAGGCCCATCCCTGGTTTTCTACCTAACAAGTAAGGGAGTCGTAGATTTAATTGGTCCTCCGCAGAATAATCATGATGGTTGGATGGTTGCACTTAAACTTCATAAAATACACACACAGTTCTATGTGTTAAGTGACATGTAGCGACCTAGAAGCCATACAAATGTTTGACACATAAGAGAAATGAATTTGCTGGACTATTTGTGAACTGCCTCCGTTTCAG
Seq C2 exon
ATGTTGATGAGTGTGCAGTCGGCTCGGACTGTAGTGAGCACGCCTCCTGCCTGAACACCAACGGATCCTACATATGCTCGTGCAAGCCCCCGTACACGGGAGATGGGAAAAACTGTGCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000033110:ENSRNOT00000047200:31
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=91.5),PF0764510=EGF_CA=PU(0.1=0.0)
A:
NA
C2:
PF0764510=EGF_CA=WD(100=95.1)
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:
GCATTCGCTGTGGGCTGC
R:
CTGCACAGTTTTTCCCATCTCC
Band lengths:
294-725
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]