BtaINT0129772 @ bosTau6
Intron Retention
Gene
ENSBTAG00000009226 | SCUBE3
Description
signal peptide, CUB domain, EGF-like 3 [Source:HGNC Symbol;Acc:HGNC:13655]
Coordinates
chr23:9161244-9161967:+
Coord C1 exon
chr23:9161244-9161459
Coord A exon
chr23:9161460-9161805
Coord C2 exon
chr23:9161806-9161967
Length
346 bp
Sequences
Splice sites
5' ss Seq
GTGGTAAGG
5' ss Score
8.37
3' ss Seq
CGCGGCCGACTCTCCCTCAGTCA
3' ss Score
5.74
Exon sequences
Seq C1 exon
CTGGCTGTGGGCTGCCCTGCCTCCGACAGCGGATGGAACGGCGGCTAAAAGGATCCCTGAAGATGCTTAGAAAGTCCATCAACCAGGACCGCTTCCTACTGCGTCTGGCAGGCCTCGATTATGAGTTGGCCCACAAGCCAGGCCCAGTAGCTGGGGAGCGAGTTGAACCAGTGGAGGCCTGTAGGCCTGGGCAGCACCGCTCTGGGGCCAAGTGTG
Seq A exon
GTAAGGGAGCTTGCTGGGGAGCAGGGGAGTAGGGGAGTAGGGAAGGCTCAGCTTGGGTCTGGTTCAGAGCAGGACACTTTACATCTCTCAAGGTGTGAGGCAGCCAAGACCCTTCTGCCCATCATCTTCCCCTCCTTGGTCCCAGACTGAGATCTAGAGGGCCATCATGTGGAGCTACCAACCCTCCTGCACATGGCTTTGGCCCCTGAGCCTCCCCAGCAGGATTCTGTCTGATCCCAGACCAAGAGGTTCTCCTTGAATCTGGGGGAGAGGGAAGGGGAGCCCCAGACCCGGGTGGTGGGAAATAGGTGGGGGTGGGTGGCTAGCGCGGCCGACTCTCCCTCAG
Seq C2 exon
TCAGCTGCCCGCAGGGAACGTATTACCACGGCCAGACGGAGCAGTGTGTGCCATGCCCAGCGGGCACCTTCCAGGAGAGAGAAGGGCAGCTCTCCTGCGACCTTTGCCCTGGGAGTGATGCCCACGGGCCTCTTGGAGCCACCAACGTCACCACATGTGCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000009226:ENSBTAT00000012158:15
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.219 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
Other Skipping Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GATGGAACGGCGGCTAAAAGG
R:
ACATGTGGTGACGTTGGTGG
Band lengths:
343-689
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]