BtaINT0129774 @ bosTau6
Intron Retention
Gene
ENSBTAG00000009226 | SCUBE3
Description
signal peptide, CUB domain, EGF-like 3 [Source:HGNC Symbol;Acc:HGNC:13655]
Coordinates
chr23:9162175-9162996:+
Coord C1 exon
chr23:9162175-9162342
Coord A exon
chr23:9162343-9162834
Coord C2 exon
chr23:9162835-9162996
Length
492 bp
Sequences
Splice sites
5' ss Seq
AAGGTGAGT
5' ss Score
10.47
3' ss Seq
CTCCTCCCCGCTGCCTGCAGTCC
3' ss Score
8.19
Exon sequences
Seq C1 exon
GTCAGTGCTCACCTGGCCAACACTCTGCAGATGGGTTCAAGCCCTGCCAGCCGTGCCCACGTGGCACCTACCAACCTGAAGCAGGACGGACCCTGTGCTTCCCATGCGGTGGGGGCCTCACCACTAAGCATGAGGGAGCCATCTCCTTCCAAGACTGTGACACCAAAG
Seq A exon
GTGAGTGGGCTGCTCATCCTGGTAGGATCCCCAGCCCCAACTACCTCCCACACTCTCTCCAGGTCCCCAGAGTAGACCCAAGTATGCTGCCCTACCATCTTCCCCAAACCACTAAAGGCCCAGCTGCATGACCAACCCCACCATCCTACTCACAGGACGCATCCTGGCCCTCCAGCAGTCCTAAGCCTAGGAACTGGGGAAAGAGTAACAGCTCCACTTAGCCCTCTGCTTTGGGAGTGGCGCCACCTCTCCTCAAAGCTGCAAACGAGTTTCTCTGCAGGTGCTCAGTGCCCGAGAGAACAGGCTGACACTGACCAACCGCGCTGGCTAGTTTGTGTCCTCCTGGGCCTAAATTCTGGAGTGACTAGGGAAGGCTGGGACTCCAGAAGGAACTCTGGTGTCTTTTGTTTACTCTCTATGATGAACGTGTCCCTGCCCCAGAATTCCTTCTGGCCTGCCATCTTAACCCCTGCTCCTCCCCGCTGCCTGCAG
Seq C2 exon
TCCAGTGCTCCCCTGGGCACTACTACAACACCAGCATCCACCGCTGTATCCGCTGTGCCATGGGCTCCTATCAGCCTGACTTCCGTCAGAACTTCTGCACCCGCTGTCCAGGAAACACAAGCACTGACTTTGATGGCTCTACCAGTGTGACCCAGTGCAAGA
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000009226:ENSBTAT00000012158:17
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=0.018
Domain overlap (PFAM):
C1:
PF076998=GCC2_GCC3=WD(100=84.2)
A:
NA
C2:
PF076998=GCC2_GCC3=WD(100=87.3)
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:
CAGTGCTCACCTGGCCAAC
R:
TTGCACTGGGTCACACTGGTA
Band lengths:
326-818
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]