BtaINT0129776 @ bosTau6
Intron Retention
Gene
ENSBTAG00000009226 | SCUBE3
Description
signal peptide, CUB domain, EGF-like 3 [Source:HGNC Symbol;Acc:HGNC:13655]
Coordinates
chr23:9163417-9164201:+
Coord C1 exon
chr23:9163417-9163614
Coord A exon
chr23:9163615-9164048
Coord C2 exon
chr23:9164049-9164201
Length
434 bp
Sequences
Splice sites
5' ss Seq
ACTGTGGGT
5' ss Score
1.96
3' ss Seq
CCTGCTGCTTACCTTCCCAGCCT
3' ss Score
6.73
Exon sequences
Seq C1 exon
ATCGCCAGTGTGGTGGGGAGCTGGGTGAGTTCACTGGCTATATCGAGTCCCCCAACTACCCAGGCAACTACCCAGCTGGTGTGGAGTGCGTGTGGAACATCAACCCCCCACCCAAGCGCAAGATTCTTATCGTGGTACCCGAGATCTTCCTGCCATCTGAGGATGAGTGTGGGGACGTCCTCGTCATGAGAAAGAACT
Seq A exon
GTGGGTGGCTGAAGAGCTGGGCCAGGGAAGGGGGGAGAGAGAGAGAGAAAATTGGTGGTGGAAGAATTGGGGCCATGATGAGTAAGGCCTTGGAAGCAAAGGAAAATAGCAATGAATGCTACATGTCCAATGGAGGGCAGAGTTAAGAAAGCCAGCTTTGGAAGTAGAATTTCAATAGTGTTACATGTGTTACTTTCCTATTCTAGAATTTTTACAGCTCCATTCATTTAAATGTTAAACTTTTCACACTGTGTGAGTGCCTGGGTGTCAAAGAACATGCCGAGGGCCGTGAGAAAGGCTATGTGTATGGGTGTAAGGAGGGGGCTGGGGGAGCTACGCATATGAGGGAGGGCCTCTGTCAGCCTGAGTCCTCGCTCTAGGAGGACTTGGGGAGCTTGCCTGGCTCTCTCCTGACCTGCTGCTTACCTTCCCAG
Seq C2 exon
CCTCCCCATCCTCCATTACCACCTATGAGACCTGCCAGACCTACGAGCGCCCCATCGCCTTCACAGCCCGCTCCAGGAAGCTCTGGATCAACTTCAAGACAAGTGAAGCCAACAGTGCCCGTGGCTTCCAGATCCCCTATGTTACCTACGATG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000009226:ENSBTAT00000012158:19
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:
PF0043115=CUB=PU(57.3=94.0)
A:
NA
C2:
PF0043115=CUB=PD(41.8=88.5)
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:
AGTGTGGTGGGGAGCTGG
R:
CGTAGGTAACATAGGGGATCTGGA
Band lengths:
342-776
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]