GgaINT0062187 @ galGal3
Intron Retention
Gene
ENSGALG00000015721 | SVEP1
Description
NA
Coordinates
chrZ:65143949-65144168:-
Coord C1 exon
chrZ:65144055-65144168
Coord A exon
chrZ:65143975-65144054
Coord C2 exon
chrZ:65143949-65143974
Length
80 bp
Sequences
Splice sites
5' ss Seq
CAGGTACAC
5' ss Score
7.29
3' ss Seq
CCCTGACGAAAGTATTTCAGTCT
3' ss Score
-1.81
Exon sequences
Seq C1 exon
GTCTCTTGTGTGAGAAAGATATAAATGAATGTACTTCTAGTCCATGTTTGAATGGAGGCCACTGTGTCGACGAGAGGAATGGTTACCACTGTACTTGTGCAAAAGGATTCACAG
Seq A exon
GTACACTATTTCTTGTATGAGCCAGATTCACTCTTTCTTACCCAAAAAGATGTCTTCTTTCCCTGACGAAAGTATTTCAG
Seq C2 exon
TCTCACTGCTATGTGTTACATATGTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000015721:ENSGALT00000025350:25
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=WD(100=71.8)
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Human
(hg38)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TGAATGTACTTCTAGTCCATGTTTGA
R:
CACATATGTAACACATAGCAGTGAGA
Band lengths:
115-195
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]