BtaINT0129769 @ bosTau6
Intron Retention
Gene
ENSBTAG00000009226 | SCUBE3
Description
signal peptide, CUB domain, EGF-like 3 [Source:HGNC Symbol;Acc:HGNC:13655]
Coordinates
chr23:9160016-9160526:+
Coord C1 exon
chr23:9160016-9160120
Coord A exon
chr23:9160121-9160409
Coord C2 exon
chr23:9160410-9160526
Length
289 bp
Sequences
Splice sites
5' ss Seq
ATGGTGAGC
5' ss Score
8.27
3' ss Seq
AGCTTCTGCCATCCCTCTAGAGG
3' ss Score
6.69
Exon sequences
Seq C1 exon
AGTCTGAGAATGGCTTCACCGTGAGCTGTGGCATCCCCAGCCCCAGGGCTGCTCCAGCCCGAGCTAGCCATGCCGGGAACAGCACGAACTCCAACCACTGCCATG
Seq A exon
GTGAGCACCAGCCCAGATGCCTTGTCTCAAGCTATTCTCTGGCTTATTAACCCCAATTTCCCTTCCTTATTAATCCTCCTGGCCTTACTTTTTCCTGGATCCCCTTCTTTACTCTGTATTTGTCTAGCCCTGCTGCCTTGCTCCCTCTGCCCTTGACATCTGATGCTCTTGGCTTTAGTAACCCCTCTCCTCCAGCCAAGACCCCGGCCCCAGCTTCCCAATACCCTCTATAGCCGCCCCCACCCTCACGGGGCCCCCAGGCTATGCTGAGCTTCTGCCATCCCTCTAG
Seq C2 exon
AGGCTGCAGTGCTGACGGTTAAACAGCGGGCTTCCTTCAAGATCAAAGACGCCAAGTGCCATTTGCACCTGCGAAACAAAGGCAAAACGGAAGAGACCAGTAGAATCACGGGGCCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000009226:ENSBTAT00000012158:12
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.306 A=NA C2=0.275
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
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:
GTCTGAGAATGGCTTCACCGT
R:
CTGGCCCCGTGATTCTACTGG
Band lengths:
221-510
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]