BtaINT0129773 @ bosTau6
Intron Retention
Gene
ENSBTAG00000009226 | SCUBE3
Description
signal peptide, CUB domain, EGF-like 3 [Source:HGNC Symbol;Acc:HGNC:13655]
Coordinates
chr23:9161806-9162342:+
Coord C1 exon
chr23:9161806-9161967
Coord A exon
chr23:9161968-9162174
Coord C2 exon
chr23:9162175-9162342
Length
207 bp
Sequences
Splice sites
5' ss Seq
CAGGTGCCA
5' ss Score
3.75
3' ss Seq
CGGCCCTTGGCTCATTGCAGGTC
3' ss Score
7.81
Exon sequences
Seq C1 exon
TCAGCTGCCCGCAGGGAACGTATTACCACGGCCAGACGGAGCAGTGTGTGCCATGCCCAGCGGGCACCTTCCAGGAGAGAGAAGGGCAGCTCTCCTGCGACCTTTGCCCTGGGAGTGATGCCCACGGGCCTCTTGGAGCCACCAACGTCACCACATGTGCAG
Seq A exon
GTGCCAGGGGAACAAACAATACAGAGTGGGGTAGGGTGGGCACTGGGACGCCCATGGGCATGGGACTTCCCAAGGGCAGGCCCAGGCTCCAGGCCACTCTCCTCGTCAACATCCTATTTGTGTGTGCCTCTGTCCCCTGAGACTGGGTTACCCTGTGGGGATAACCAGGACCACCCCCATCAGAGTTCGGCCCTTGGCTCATTGCAG
Seq C2 exon
GTCAGTGCTCACCTGGCCAACACTCTGCAGATGGGTTCAAGCCCTGCCAGCCGTGCCCACGTGGCACCTACCAACCTGAAGCAGGACGGACCCTGTGCTTCCCATGCGGTGGGGGCCTCACCACTAAGCATGAGGGAGCCATCTCCTTCCAAGACTGTGACACCAAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000009226:ENSBTAT00000012158:16
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
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CGCAGGGAACGTATTACCACG
R:
GCTCCCTCATGCTTAGTGGTG
Band lengths:
292-499
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]