GgaINT0141277 @ galGal3
Intron Retention
Gene
ENSGALG00000002675 | SCUBE3
Description
NA
Coordinates
chr26:3970703-3971118:-
Coord C1 exon
chr26:3970951-3971118
Coord A exon
chr26:3970865-3970950
Coord C2 exon
chr26:3970703-3970864
Length
86 bp
Sequences
Splice sites
5' ss Seq
AAGGTATGT
5' ss Score
9.79
3' ss Seq
TTTGCTCTCCGTTCCCCCAGTCC
3' ss Score
10.7
Exon sequences
Seq C1 exon
GTCAGTGCCCCCCTGGGCAGCACTCCACCGATGGCTTCAAGCCCTGCCAGCCGTGCCCGCGTGGCTCCTACCAGCCCGAGGTGGGGCGGGCTCTCTGCTTCCCCTGCGGCGGGGGGCTGACCACCCGGCACGAGGGAGCCCTCTCCTTCCAGGACTGTGACACCAAAG
Seq A exon
GTATGTCCCAGCCGGTGCAGGGCGGGGGGGACCCGCTGGGGCTGTGCCAGTGGTGACAGAGCTCTGTTTGCTCTCCGTTCCCCCAG
Seq C2 exon
TCCAGTGCTCGCCCGGGCACTACTACAACACCAGCGTCCACCGCTGCATCCGCTGCGCCGTGGGCACATACCAGCCTGACTTCAGGCAGAACTACTGCATCGCCTGTCCCGGCAACACCACCACCGACTTCGACGGCTCCACCTCCGTGTCTCAGTGCAAAA
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=0.018
Domain overlap (PFAM):
C1:
PF076998=GCC2_GCC3=WD(100=84.2)
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:
CACTCCACCGATGGCTTCAAG
R:
GCTGGTGTTGTAGTAGTGCCC
Band lengths:
183-269
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]