BtaINT0129743 @ bosTau6
Intron Retention
Gene
ENSBTAG00000011275 | SCUBE1
Description
signal peptide, CUB domain, EGF-like 1 [Source:HGNC Symbol;Acc:HGNC:13441]
Coordinates
chr5:114669590-114671820:-
Coord C1 exon
chr5:114671704-114671820
Coord A exon
chr5:114669713-114671703
Coord C2 exon
chr5:114669590-114669712
Length
1991 bp
Sequences
Splice sites
5' ss Seq
GAGGTCTGC
5' ss Score
3.9
3' ss Seq
ACGCCTGCCTGTGCCTCCAGATG
3' ss Score
9.48
Exon sequences
Seq C1 exon
ACATCGACGAGTGCTCCTTTGAGCGGACCTGCGACCACACCTGCATCAACTCCCCGGGCAGCTTCCAGTGTCTCTGCCACCGCGGCTACACACTCTACGGGACCACCCACTGCGGAG
Seq A exon
GTCTGCAGCTCGCCCGCCAGGGCCACCTCCCCCCCGAGGCACGCGCCCGGCCGCACGGCCCCCCACACCGCACCCTGCACCCCTCACCCCGACCTGGACTCTTGACGGGCCTGGGAGGGCCTGGTGGGCAGAGGGGCTCAGCCAAGGGCGAGGCGGGAGGCTGGGAGGCGGGGGGCGCTGGCCTGGAAACAGCAGCCTCTGGGGAACCCCACTCAGGAAGGGAGGACAGCGGGACAGAGCACTGCACAGTCGGTTCACTCCAGTGGGGGGGCTGACAGCAGAGAGGGGCAGGCCAATGGGGGACTCCAAAGGAGGAGTGCTGGAGTGAGGATGAAGGGAGACGGGCCAGAGGGGTCGGCATGTGCAAAGGCCCTGAGGCAGAGGGAGCACAGACGGACCGAGGGGCAGCTGGTGGGGCCAGAGCCCCATGAGGGAAGGGTTAGTGCATGGTACAGAGAGGACCCAGGGTTTCGTCAGCCCCCAGGGGCCTTGAGGCTTTATTCTCAGCACAGGGAGAAGCCACTGGAGGGTCAAGGCAGGGATGTGACCTGTAAGTTCAAGTTCATATAAGGAGAGCCCTCCTGCCTCCCTGTGTTTAGGAGAGTGGAAGCCAGAGCACCCGTGAGGACACAGCTCCGGACGTGGGAGTGAGAGCCCTATGGGCTCAAGCAGGCTGGGAGGGATGTGGAGAGAGGGAGGGTTCCAGACGTACGGGCATAGGGGCACGAAGGTGGGGGAGTCCAGCACAGCCCCGCATCCCGTGTCTGCTCCTGTCCTGTGACCTGGGGTAGCCGCGCTTCCCCATGGCGGGGCAGCCGTGGCGGGGCAGCCGTGGCGGTCGGGTGGGCTCAGGCACAGCTGGTGCTGCGGGGAGCTGCAGAGTTTTCTGGAGGGACTCCCAAAAGCCTGGCACCAGCTTCCACACACAGGGCTTTGGCTCAAAAGAAGGCAGGGCCTCAGGGAGACTTCCCAGGGCCCCGGGGCCCTGTGCGGGAGGGGGAAAGGGCTGGGAAGGGCATGTCCAAAGTCCTGCGCTGGGATGAGGCCTCAGGACCCCGGGGCCGGTGCTGGGCTCTCCCAGCCCCTCCAAACCTGCCCACAGCTCTGTTTTGTGCCACCTCTCTGCCCCACCCCGAGTCTGGGCTCAGCTGCCCAAGTTCGGCAAACCACTGAGGTTCCTAGGGGAGGATGTGTGTTGGTGTCTGTTGGAGCCCTGTGTGTGTGTACACACGTGTGTAAGCTCACTTGTGTGTCATAGGCCGTGAGTGTGTGTGCGAGCTCACATATGTATCACGTGCCCTGTGTGTGTCTCTGTGTGTGTGCACGTGTGTATGTGCAATCTCATGTGTGTGCCATGCGCCCTGTGTGTGTTTCTGTGTGTGTGTGCATGCATGTGTGTGCAAGCTCACGTGTGTCACATGCCCCGTGTGTGTCTCTATGTGTGCACTTGTGTATGTGCGATCTCATATGTGTGCCATGAGCCCTGTGTGTGTGTTTCTCTGTGTGTGTCTGTGTGTGCATGCGTGTGTGTGAGCTCACGTGTCACATGCCCTGTGTGTGTCTGTGTGTGTGTGCGTGCACACATGTGCGAGCTCACATGTGTGTCCTGTGTCCTGTGTGTGTGTGTGCATGCACATGTGTGCGAGCTCACATGTGTGTCACGTGCCCTGTGTGTGTCTCTGTGTGTGTGCACGTGTGTATGTACAATCTCACATGTGTGCCATGCGCCCTGTGTGTGTGTCTGTGTATGCATGCGTGTGTGCGAGCTCACGTGTGTCACATGCCCTGTGTGTGTCTATGTGTGTGCGTGCACACACGTGCGAGCTCACGTGTGTGTCACGCGCAGCCGCCTGTCTGCATCCAGTGAGAGCCTCAGGCGAGGGTCAGGGTCAGGGGATTCTCGGCCCCCCACCCTGGTGGGTCCTGCCCTGCCGGCCCCGAGGGTGCCCGTCCAGCCCCACTCCTGCCCTTACGCCTGCCTGTGCCTCCAG
Seq C2 exon
ATGTGGACGAGTGCAGCATGAACAATGGCAGCTGCGACCAGGGCTGTGTCAACACCAAGGGCGGCTACGAATGCGTCTGCCCCCCGGGGAGGCGCCTGCACTGGAACCGCAAGGACTGCGTGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000011275:ENSBTAT00000037639:8
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:
PF0764510=EGF_CA=WD(100=95.0)
A:
NA
C2:
PF146701=FXa_inhibition=WD(100=85.7)
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:
ACATCGACGAGTGCTCCTTTG
R:
CAGTCCTTGCGGTTCCAGTG
Band lengths:
235-2226
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]