BtaINT0129728 @ bosTau6
Intron Retention
Gene
ENSBTAG00000011275 | SCUBE1
Description
signal peptide, CUB domain, EGF-like 1 [Source:HGNC Symbol;Acc:HGNC:13441]
Coordinates
chr5:114658671-114659513:-
Coord C1 exon
chr5:114659397-114659513
Coord A exon
chr5:114658809-114659396
Coord C2 exon
chr5:114658671-114658808
Length
588 bp
Sequences
Splice sites
5' ss Seq
TGGGTGAGT
5' ss Score
8.73
3' ss Seq
GTGGCCCTTTCCTTGTCCAGAAA
3' ss Score
7.98
Exon sequences
Seq C1 exon
GTGCCCCTGCCACCCTCATCAGGCAGAAGGCGCGCTTCAAGATCCGAGATGCCAAGTGCCACCTCCGGCCCCGAAGCCAGGAGCCAGCCAAGGAGGCCCCGAGGCAGCTGCTGCTGG
Seq A exon
GTGAGTGGGCCATCCCAGTGCCAGCCCTCCTGGTGCCCCGCAGACCGTGTGGTGTCCCTGGGGATGAAAGCCAGCGTTCCAGCAGAAGAGCATCCCCTGGGCCCCTCTCTCCACCTCACCCCAGGGTTCAGTGAGCTCCCCCCAGAGCGAGGCTCTCTGCCAGGTCGTGTCCAAGTGGAAGGAGCCCCAGGGCTCCCTCAGCGGCCCTTTCTTGGATGAGGGTGGCCAAGAAGGGCGTTCCGGAGGGGGGACTTCCACGGGGAAAGCCAGGGAGCAGGGCCAAAAGAAAGCAGGCCAGCTCTGTTTGCTGAAACCTGACAAAGCTGGGCGCTTGGCAGGCCTAACCTGGGCCAGGTTGCCCCGAGCTGGGGTTGCACAGCCTCACTAAGGGAGACGCTCCAGGGGCCCCGAGGGCAGCAGTGTGAGGGCCTTGTTGGGGTGGATACAGGGCTGCGTCCCCCCAGGCCCATCCTGGGGCAGACCCTGGCCTTCTCCAGCCTGTGTGCCCGTCTGAGCCTGGACTCTTAGGCAAGGGGGACCCCCGCTCCCCCCCGCCGCCTTTGCCACAGTGGCCCTTTCCTTGTCCAG
Seq C2 exon
AAAACTGCCACATGACCTTTGTGACCCTCAAGTGTGACTCCTCCAAGAAGAGGCGCCGTGGCCGGAAGTCTCCATCCAAGGAGGTGACCCACATCACGGCCGAGTTTGAGGTGGAGACAAAGGTGGAAGAGGCCTCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000011275:ENSBTAT00000037639:12
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.350 A=NA C2=0.511
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:
CCACCCTCATCAGGCAGAAGG
R:
CTGAGGCCTCTTCCACCTTTG
Band lengths:
246-834
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]