BtaINT0129734 @ bosTau6
Intron Retention
Gene
ENSBTAG00000011275 | SCUBE1
Description
signal peptide, CUB domain, EGF-like 1 [Source:HGNC Symbol;Acc:HGNC:13441]
Coordinates
chr5:114647800-114649581:-
Coord C1 exon
chr5:114649384-114649581
Coord A exon
chr5:114647953-114649383
Coord C2 exon
chr5:114647800-114647952
Length
1431 bp
Sequences
Splice sites
5' ss Seq
GCGGTACGT
5' ss Score
10.27
3' ss Seq
GTGACGCTCTCCGCCCCCAGCCT
3' ss Score
7.7
Exon sequences
Seq C1 exon
ACCAGCACTGTGGCGGCGAGCTCGGCGACTACACAGGCTACATCGAGTCTCCCAACTACCCTGGCGACTACCCGGCCAACGCCGAGTGCGTGTGGCACATCTCGCCGCCCCCCAAGCGCAGGATCCTCGTCGTGGTCCCCGAGATCTTTCTGCCCATCGAGGACGAGTGTGGCGACGTCCTGGTCATGAGGAAGAGCG
Seq A exon
GTACGTGTCCGTCCAGGCACTCGCGTCTAACCCCGAGGGCTGGGCTTTCCAGCACGGCATGGAAAGGATCGGGGGAGCCTGGGGTGTGCGCTCCACGTGGGAACCGAGGACCTGCGAGACCTGGTCTCAACAGTGCCCACCAGCCACTCTCCACCCCAGTTGTCCCCCACACCCTGCCACACCACCGCCCAGGGTGAGGTCCAGGAGCACCCCTATCCCGCAGCGCCTTGCAGGGCCAGCGAAGGACCAGGCTGGGCGCTCACTCAGGGCCCACCCTCTCCCTCTGCAGCCAGCTGGCTTGCCACCCCATGGGGGCTCAGAGTGAGACTTCAGGTGGCAGGGCCAGCCCCTCGGTAGTGGGTGAGCAGCAGTGCGTGCCCAGAGGCCACGGCTGCAGGAAGGGTGGGGGGTCCTGAGTCCCCAGGGACCAGGTAGAACCCCCCTCCCCGCCAACAGCGTGTGCCTCAGCCGGGGGCAGGGGACCTCCCCGCCGTGGTAGGACCACAGCGCCCACCGGGAGCCAGCCCCAGGTCAGAACATTAGAGAAGAAGGGGGACAGTGTGGTGCCTTCCCCCGGGGACCTGGGATGAGTCTGATGCACAGAGACTGGCCAGAGGAGCAGGAGAACAGGGGGACGGGGGTGCAGAGGCCTCGTCTGCTACGTGCTGCGTGGTTCCCGGGTGCCTGCATCACCCGCTCCAGGTCGATGATGAGCAGAAACGCCCGCCGCCCCATCTCTGCGTATGAAGGAGGCGTCGAGGCCAGGATGAGCGAGGCAGCTTCCTGGGCTCCTCCAGCCAGTCAGAGCCCAGTCCGGGACCATCCCCACCCACTGCCCTCCCTGCCTCCCCCATTCCCAGCATCTCCCCCTCCACTGTGCGTCCCCAGGGCCGGGTTCTAGGGAGCCAGCCTCTCCCCGCTCTCGAGAGTGTCAGGAGAGCTCCCCAGGGAGCAGGGAGGACTGGGCACCTTTTGGCCACCCCCAGGCACCCCAAGGGTTAGCCAGCTCACCTTTGCTCATCCGCTCACCAGGCAGGGAGCTGACCCTCCCAGCCCTAGCTTTGTCCTGGGTGCAGGCGTGAGCCCTGTCCTTGAGGAGCAGGTGGCAGGGACAGTGACCAGCCTGTAGAAAGGGGCTGAAATACAATGTTCTCCAGAGCAGAGAGGAAACATGGTGGGAATGGAGCAGTCAGGAAGGCTTCCTGGAGGAGGGGGCACGGACACTGGTCTCAGAGGGACACGGGACCTGGGGGTGAAGGTGGGGAAGGGCATTTGAGGCAGAGGGGACATGCGCGGGGACCGGAGAGCTGGAGTGTTTGGGAGGCTGGGCGCTGCAGGTGCTGCCTAGCTGCCTGCTGGGGAGGCAGGCGGGCAGGGACAGGTGAGGCTGTGGATCCGGGGCAGCTCAACCGTGACGCTCTCCGCCCCCAG
Seq C2 exon
CCTCACCCACATCCATCACCACCTATGAGACCTGCCAGACCTACGAGAGGCCCATCGCCTTCACCTCCCGCTCCCGGAAGCTCTGGATCCAGTTCAAATCCAATGAAGGCAACAGCGGCAAAGGGTTCCAAGTGCCCTATGTCACCTACGACG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000011275:ENSBTAT00000037639:18
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:
GAGCTCGGCGACTACACAGG
R:
CGTCGTAGGTGACATAGGGCA
Band lengths:
334-1765
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]