GgaINT0141275 @ galGal3
Intron Retention
Gene
ENSGALG00000002675 | SCUBE3
Description
NA
Coordinates
chr26:3971351-3971817:-
Coord C1 exon
chr26:3971614-3971817
Coord A exon
chr26:3971513-3971613
Coord C2 exon
chr26:3971351-3971512
Length
101 bp
Sequences
Splice sites
5' ss Seq
GTGGTAAGG
5' ss Score
8.37
3' ss Seq
CCTCCAGCCCTGGCTCTCAGTTA
3' ss Score
3.69
Exon sequences
Seq C1 exon
CCAGCTGCAACCTGCACTGCCTGCGACAGAAAGTGGAGAAAAAGCTCAAATCGGCCATCAAAGCCCTGAAGAAATCCATCAACCAGGAGAGGTTCCTGCTGCGCTTCGCTGGGATGGAGTACGAGGTGGCGAGGAAGCTGAGCGTGGCCCCGGAGCGGCAGGAGAGCTGCGGGCCGGGCCAGCAGCGCCTGGGCACCAAGTGTG
Seq A exon
GTAAGGGAGCAGTGCAGGGCGCTGGGATGGGAACCGATGTGTCCCCCCCCCATTGGGGACAGCCCCCCGGCATGCCACTGACCTCCAGCCCTGGCTCTCAG
Seq C2 exon
TTAGCTGCTCGCAGGGAACCTATTACCACGGGCAGACGGAGCAGTGCGTCCCCTGCCCCTCTGGCACCTACCAGGAGAAGGAAGGGCAGCTCTCCTGTGACCTGTGTCCCCGCAGCGATGCGTTCGGCCCCGTGGGAGCCACCAACATCACTGGCTGCACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000002675:ENSGALT00000004215:15
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:
NO
A:
NA
C2:
PF076998=GCC2_GCC3=WD(100=87.3)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GCTCAAATCGGCCATCAAAGC
R:
TGCCCTTCCTTCTCCTGGTAG
Band lengths:
249-350
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]