GgaINT0141280 @ galGal4
Intron Retention
Gene
ENSGALG00000002675 | SCUBE3
Description
signal peptide, CUB domain, EGF-like 3 [Source:HGNC Symbol;Acc:HGNC:13655]
Coordinates
chr26:4079491-4079882:-
Coord C1 exon
chr26:4079730-4079882
Coord A exon
chr26:4079571-4079729
Coord C2 exon
chr26:4079491-4079570
Length
159 bp
Sequences
Splice sites
5' ss Seq
ATGGTAAGC
5' ss Score
9.26
3' ss Seq
CTCTCACTTGGCTGTTGCAGAGG
3' ss Score
7.07
Exon sequences
Seq C1 exon
CCTCCCCATCCTCCATCACCACCTATGAGACGTGCCAGACCTACGAGAGACCCATCGCCTTCACCGCCCGCTCTCGCAAACTCTGGATCAACTTCAAAACCAGCGAGGCCAACAGCGCCCGGGGCTTCCAGATCCCCTACGTCACCTATGATG
Seq A exon
GTAAGCACGGGGCGGCAGCATCCCGGCCTGGCGCTGCCTGCCCTGCTCCCCAGGAGCCCAGCTTACATCTCCCATGCACTGGGGAGCTCAGTGCCAGGGATTGGGACTCTGGGTTTGGGGAGGCCTGCCCTGAGCTGGTCTCTCACTTGGCTGTTGCAG
Seq C2 exon
AGGACTACGAGCAGCTGGTGGAGGACATCGTGCGGGACGGCAGGCTGTACGCCTCCGAAAACCACCAGGAGATCCTCAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000002675:ENSGALT00000004215:21
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms (No Ref)
No structure available
Features
Disorder rate (Iupred):
C1=0.019 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0043115=CUB=PD(41.8=88.5)
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CTCCCCATCCTCCATCACCAC
R:
GGATCTCCTGGTGGTTTTCGG
Band lengths:
227-386
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]