BtaINT0129784 @ bosTau6
Intron Retention
Gene
ENSBTAG00000009226 | SCUBE3
Description
signal peptide, CUB domain, EGF-like 3 [Source:HGNC Symbol;Acc:HGNC:13655]
Coordinates
chr23:9156325-9158274:+
Coord C1 exon
chr23:9156325-9156441
Coord A exon
chr23:9156442-9158151
Coord C2 exon
chr23:9158152-9158274
Length
1710 bp
Sequences
Splice sites
5' ss Seq
AAGGTAAGG
5' ss Score
10.51
3' ss Seq
GTTTTGTCCTGCTTCCCCAGACA
3' ss Score
8.74
Exon sequences
Seq C1 exon
AGACCTGTGCTGTCAACAACGGGGGCTGCGACAGCAAGTGCCACGATGCAGCGACGGGCGTCCACTGCAGCTGCCCTGTGGGCTTCATGCTGCAGCCAGACAGGAAGACCTGCAAAG
Seq A exon
GTAAGGGTTTTCAGAGGACAGGAGTGTAAAGATAAGGAGCTAAGACTGCGACCAGAGACAGGGTACCTCATTGTGGGACCTCCTCAACCCCCGCAAGTTATCCTGACTCTAAAGAACTGAGGCTGTGATGAAGGCTTGTCTCCTGTCCGCCTTCCCCATCTCAGTCCAAGAGGCACCAAAGTCCAGCCAGTTCCTTAGCGCCCCTGCCCCGCTTTGTTTTCCTTCCTCTTGTTCCTCTTCTCCCTGCAGGTCCCTAACCCTCTTGGTTAATGAACATGCTGTTCACGTTTGTTCCTGAGTCTAGAAGGGTGTTTGCGCCCTGATTATGTATGCACAAGGTGACAAGTGTGTTCCTTCTTAGCCCACAGTCCCCAGACCTTCCCCGTGGAAAGGCTCTCCTGATCAGAGGGAGATTAGGGGAGCAGGTAGGAGCACTGACACTAGAGCCTGGCTCCCTGGCTCCAGATTCCAGCTCGGCCTCTTATTAGCTCTGTGATCCTGGGCTAGCTCTTTAGTATCTCTGTGCCTCAGTTTCACCACAGTAAAGGTTCAGTGCCTCACAGAAATGCTACAAGGATTAAACGAGTTACATTTCAACCATCAACTATATGTAAAGTCTTAGGACAGTGCCTGGCAAACGGTAACAATGTGTTAGCTACTATTATGATAGAATTTCCCACACTGTCCATTCTGTTTCCCTTTCCTTTTGATGAGCCCGCTTTAGGGGAAAGGCACAACAGGGGAGGAAAACGGGAGGGTGGCCCTACTGAAAATACGATTCATCAGGTCTGTGTCCCTCGTCACAAGGTGGAGGGACTGGAGCAAGGCCGGGTGTGCTCTTTGTGCCTCTCGGCCCAGCAGCTGGCAAACAGACCAGGGAGGAGGCTGGGGCCGGGCTGGGGCGGGGGTGTTTGTGGCTGGGGCAGCAGGTCAGACAGCCAGAGTTGAGAAGTTTGCTGCTAGGAAGGACTGCTGACAGGTATGCTGAGAGTAAAGTGCAAGACTGCCCTCTCTGCCCCTTCCCCCAAGTCAGGGTGAGTAGCCTGGGTCCTGTCTGCCACCAGCTTGGGGAACTTGACCTCAGGAAGGAAGCCACTCACGCGCCCCCTCCTTCCTTTCCCTTCCCAGTGCTGAAAGCTGCCTTGGGCCTGAGTCTCTCCAGACCTCCCCAGTCCAGCCCCCTGCCTGGCCCCCACCCTCCCCCAGCAGCTCCCCTGCCTCACTGGCTTTCCTGGAGGTCCTCCCGCCTGGCCTCTCTTCCAGCTCCTCCTCTCTGATGCGCTACCCCTTTGGGTCTCCACTTCTTTGCCGCCCCCACCCCCGAAGGCTCTTACGACAGACAGGAAAGGGATAAATCCTGTCTACCAGCGTTTTTGGAGAGGGGCCATCAGTGGCAGAATGAGGGGCAGAGACTAGCCCTGTAGGTCAGATGCCCACCTACTTCTAGGCCACTCCCTGAGGGTCTGACACTGGTTCCCATCTCTCCTGTTCTAAGAGGACTCAGACCCAAGAAACAAGGTGTTAACTAATGGCCACAGATATCCTGAAGAGGGAAGAAACAGAGATGGGAGAGAAAAAAAAGAGTCAGCAGAGGCAGACCCAGGGCTCTCCTTGATGTTCCCATCTCTGTGAGGGAGGGAGGGTCTTGTCTCCTCATTTGTCCCTAGTCTTCAGTATTACCTTTGGTTCTGTTTTGTCCTGCTTCCCCAG
Seq C2 exon
ACATAGATGAGTGCCGCTTGAACAACGGGGGCTGTGACCACATTTGCCGCAACACAGTGGGCAGCTTCGAATGCAGCTGCAAGAAGGGCTATAAGCTTCTCATCAACGAGAGGAACTGCCAGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000009226:ENSBTAT00000012158:7
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:
PF146701=FXa_inhibition=WD(100=90.0)
A:
NA
C2:
PF146701=FXa_inhibition=WD(100=85.7),PF0764510=EGF_CA=PU(0.1=0.0)
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:
AGACCTGTGCTGTCAACAACG
R:
TGGCAGTTCCTCTCGTTGATG
Band lengths:
238-1948
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]