BtaINT0129771 @ bosTau6
Intron Retention
Gene
ENSBTAG00000009226 | SCUBE3
Description
signal peptide, CUB domain, EGF-like 3 [Source:HGNC Symbol;Acc:HGNC:13655]
Coordinates
chr23:9160843-9161459:+
Coord C1 exon
chr23:9160843-9161001
Coord A exon
chr23:9161002-9161243
Coord C2 exon
chr23:9161244-9161459
Length
242 bp
Sequences
Splice sites
5' ss Seq
CAGGTGGGA
5' ss Score
6.71
3' ss Seq
ATAACACCATCCATCACCAGCTG
3' ss Score
4.66
Exon sequences
Seq C1 exon
GTGGCGCCCCCTGCTCTGACTGCCAGGTCACCTTCATCCACCTCAAATGTGACTCCTCTCGGAAGGGCAAGGGCCGGCGGGCCCGGACCCCTCCAGGCAAGGAAGTCACTCGGCTCACTCTGGAACTGGAGGCAGAAGTCAGGGCCGAAGAGACCACAG
Seq A exon
GTGGGACTGGGGACACCGTTGGGAGGAGGATGGAAAGGGGAGGGCAAAGGTGGGCAAACAGCAGGTCTCGGCAGCAAAGGGAAAGGGCAGAGCCTGTCAAAGGGCAGAGCCTGCCTAAAGCTTAGTCAAGGACCGGTCCCTCTCCCCAAGCCCCTCCTAGCTCCTCGCTTTGCTGTCTCGCCCTCCTGCTCACAACCACTCTTTCTCTTTCTTCTCCAACTCATAACACCATCCATCACCAG
Seq C2 exon
CTGGCTGTGGGCTGCCCTGCCTCCGACAGCGGATGGAACGGCGGCTAAAAGGATCCCTGAAGATGCTTAGAAAGTCCATCAACCAGGACCGCTTCCTACTGCGTCTGGCAGGCCTCGATTATGAGTTGGCCCACAAGCCAGGCCCAGTAGCTGGGGAGCGAGTTGAACCAGTGGAGGCCTGTAGGCCTGGGCAGCACCGCTCTGGGGCCAAGTGTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000009226:ENSBTAT00000012158:14
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.444 A=NA C2=0.219
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:
ATGTGACTCCTCTCGGAAGGG
R:
TACAGGCCTCCACTGGTTCAA
Band lengths:
296-538
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]