BtaINT0129733 @ bosTau6
Intron Retention
Gene
ENSBTAG00000011275 | SCUBE1
Description
signal peptide, CUB domain, EGF-like 1 [Source:HGNC Symbol;Acc:HGNC:13441]
Coordinates
chr5:114649384-114651505:-
Coord C1 exon
chr5:114651344-114651505
Coord A exon
chr5:114649582-114651343
Coord C2 exon
chr5:114649384-114649581
Length
1762 bp
Sequences
Splice sites
5' ss Seq
AAAGTGAGC
5' ss Score
5.89
3' ss Seq
ACGGGCCACGGTGCCCACAGACC
3' ss Score
6.24
Exon sequences
Seq C1 exon
TGCACTGCTCTCCCGGCCACCACTACAACACCACCACCCACCGCTGCATCCGCTGCCCCGTCGGCACCTACCAGCCCGAGTTCGGCCAGAACCACTGCATCACCTGTCCGGGCAACACCAGCACGGACTTCGACGGCTCCACCAACGTCACACACTGCAAAA
Seq A exon
GTGAGCGCTGCTCTTCCCACGGGGCGGGGGCTGCCCGGAGCGGGCTGGGGCAGGTCGTAGGGGCAGGGTGAGCCGTGACCTCTCGGTGTGTCCTCAGGGAGACTGGTGACCCTCCCTACCCCATCACATCCGCACAGCGCGCGGTGGGGCGCCCGGGCGTGGGGGGTCAGACGGCCTGGGCTCCGCCAAGCGGCCTGATTGCACTGTTTGTGGGTGCCCGTGACTCACCAATGCCCAGCCAGGGCCCGGCTCCAGGCTCCAGTCTGTGGGGGGAAAAGCTCTAGCCCAGCCAGGGAGGCTTGGGCGCAGCTGCCCGAGGGGACCTTGCAGCTCTGAAGGCTGCCCAGGGGCACAGACCAGAGGAGTCGAGCGATGGGAAGCGAGGTGCGAGGTGTATACAAGGTCCTGGGGCGCGACGGGGAAAACAGATGGCCGCGCTGTGTCTGTAAGAGGCTCTGTTTCAGCCCTGAGTAGCGTGGACAGCAGAAGCCAGTCGCAAAGAGGCCACACCCTAGTCTCAAACCAGCACATCATTCAGGCCTGACCCAGAAGACGCTGTCTTTAGGGATTTCTGACTCGCTTTTCAGAGTCCTCTGGGGCCTGTTTTCCGGTGTTTCACCTTTTCTTCCATCAGTTTCCGGCCCTTCCAGTTTACCACTGCTGGAGCTGCCGGTCACAGCCTCGAGGCCCGTGGAGGAGACTTACTCCTCGGGGAGGACGCTGTCCTCCGTGCCGGGGCTGCCCTCGCTGGGCACGCGGCCTCCCGGTGGCGCTCAGAGGCGGCAAGGTTTTAAATGTTTAAACGTCCTAATGTGGAAAAGCGGGGAAGTCAAGTCAGAGGGAAGTTTCTAGAATGATGAGGTGAAAATGACACATTTGCCAGAAATTAGGGTGTGAGGAGAAGAGTTTTAAATGAAAATATGTGGGATAATTACGTATGTTTACCGCGTGCGTGCTAAGGCGCTTCACTTGTGTCCCCCTCTTTGCGATTCCGTGGACTGCAGCCGCCAGGCTCCCCTGTCCATGGGATTCTCCAGACAACAATACTGGGGTGGGTTGCCATTTCCTTCTCAAGGGGATCTTCCCGATCCAGGGATCGAACCCCCGTCTCCTGCAGCTCCTACTTTGTAGGCAGATTCTTTGCCACTGTGCCACTGGGGAAGCCTGTACTCACACAGTATTCACACTCTGTTCTTGGCCTAACTTCCTTTTACAAGGTTAAGCTAGGAACCAGTTAGTTCATTCAAAGTCACGTTTGGCCTCTTGGCGGATGGATGCACGGCTTGGCTGAAATGGAAAAAGAAGGGAGGCGTGTCTCCTGCCCCTGCTGCTTGGCTTGCTGGCCCCTCAGCCTGCCTGCTCCGTGGGGAGGGCCGCACCCGGCACCTGGGGGGATCTCAGGATGCTGAGTGCAAAGGATGGGAGACGAGTCAGCGGAGAGAAAGGGAACGTCTGGGCTCAGGTGGCCTTGGCTGAGACCCCGGAGGGGAGCAGGAGCCTGGAAGGGAGCTGACAGCTGCAGGGCCCAGAGCCCGCCAGCCGGGGGTTGAGAGCGCCAGGCGGGAGGCCAGGGTGAGGCCCCCAAGGGCACCCAGGAAGGAGGGGGACAGCCAGGACGGGGTCCCCGAAGAAGGACCAGCCCAGGGCCTGGCCAGGGGAGGAGGGCCCAGGAGGGGACGGGGCGCCTGCCGGCCCTCCCTGGGCCTTCGCGGTGGCGCAGGGCCAGCTGGCCTGACCAGGCCACGGGCCACGGTGCCCACAG
Seq C2 exon
ACCAGCACTGTGGCGGCGAGCTCGGCGACTACACAGGCTACATCGAGTCTCCCAACTACCCTGGCGACTACCCGGCCAACGCCGAGTGCGTGTGGCACATCTCGCCGCCCCCCAAGCGCAGGATCCTCGTCGTGGTCCCCGAGATCTTTCTGCCCATCGAGGACGAGTGTGGCGACGTCCTGGTCATGAGGAAGAGCG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000011275:ENSBTAT00000037639:17
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:
PF0043115=CUB=PU(57.3=94.0)
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:
CACCACTACAACACCACCACC
R:
CGCTCTTCCTCATGACCAGGA
Band lengths:
343-2105
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]