GgaINT0141276 @ galGal4
Intron Retention
Gene
ENSGALG00000002675 | SCUBE3
Description
signal peptide, CUB domain, EGF-like 3 [Source:HGNC Symbol;Acc:HGNC:13655]
Coordinates
chr26:4081267-4081828:-
Coord C1 exon
chr26:4081667-4081828
Coord A exon
chr26:4081435-4081666
Coord C2 exon
chr26:4081267-4081434
Length
232 bp
Sequences
Splice sites
5' ss Seq
CAGGTAGGG
5' ss Score
9.46
3' ss Seq
AGCAATGGCTGTGCCCACAGGTC
3' ss Score
7.04
Exon sequences
Seq C1 exon
TTAGCTGCTCGCAGGGAACCTATTACCACGGGCAGACGGAGCAGTGCGTCCCCTGCCCCTCTGGCACCTACCAGGAGAAGGAAGGGCAGCTCTCCTGTGACCTGTGTCCCCGCAGCGATGCGTTCGGCCCCGTGGGAGCCACCAACATCACTGGCTGCACAG
Seq A exon
GTAGGGGGGTGCGCAGGGGACCGGGGAGGGGATATCCACACACCAACCCCGATGCTCCGCCATCAGTCCCTGTCCAGAAGAGGCAAAAGCTCTGAGCACCCCCGGGAATTGCCCATCTGGCCGTAGGAACAGCATTTAGGAGGACCCCCATCCCCTTTGTTCAGATGGAGGGACAGGGAGCTGGGCACGGGGCACTCTGTGGGCTGCATCCCAGCAATGGCTGTGCCCACAG
Seq C2 exon
GTCAGTGCCCCCCTGGGCAGCACTCCACCGATGGCTTCAAGCCCTGCCAGCCGTGCCCGCGTGGCTCCTACCAGCCCGAGGTGGGGCGGGCTCTCTGCTTCCCCTGCGGCGGGGGGCTGACCACCCGGCACGAGGGAGCCCTCTCCTTCCAGGACTGTGACACCAAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000002675:ENSGALT00000004215:17
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:
PF076998=GCC2_GCC3=WD(100=87.3)
A:
NA
C2:
PF076998=GCC2_GCC3=WD(100=84.2)
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:
TATTACCACGGGCAGACGGAG
R:
GGTGTCACAGTCCTGGAAGGA
Band lengths:
306-538
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]