BtaINT0102912 @ bosTau6
Intron Retention
Gene
ENSBTAG00000043971 | NOTCH3
Description
notch 3 [Source:HGNC Symbol;Acc:HGNC:7883]
Coordinates
chr7:8947829-8948713:+
Coord C1 exon
chr7:8947829-8948013
Coord A exon
chr7:8948014-8948580
Coord C2 exon
chr7:8948581-8948713
Length
567 bp
Sequences
Splice sites
5' ss Seq
GAGGTAAGG
5' ss Score
10.28
3' ss Seq
CTGTCTCGCCCCCACTGCAGTGT
3' ss Score
7.44
Exon sequences
Seq C1 exon
GGGTGCCCACAGAGCAGCTGTGTCAGGCGGGTGGGCAGTGTGTGGACAAGGACAGCTCCCACTACTGTGTGTGCCCAGAGGGCCACACCGGCAGCCACTGTGAGCAGGAGATGGACCCTTGCTTGGCTCAGCCCTGCCAGCATGGGGGCACCTGCCGAGGCTACACGGGCGGTTATGTGTGTGAG
Seq A exon
GTAAGGAGCACACAGGGAAGGAGATGGAGGGCTGGTCACCCTGAGTGTGTCTGGCTACACATTTCTGTGTGTCTAGAGCCTGGTGCGGTGTCCCTCTCTAGGCATGTCTGGGTTTTTGCTTTTGTGACTCTGGGTGTATCTTTGTGGGTGTCACTCTGGGTAGATCTCAGGGTGTCTCTGGCTCTACCTCTGTCTTTCGTTATTTCTTGGACATGTGTGTCTCTGTGCATAGTGTCTCTATGGGTATGAATGGCACACATGTGCCAGTGCCTGAGTGTGCATCTCTGGCTGTGTGTGTCTTGGGTGTATCTGGGTATTTCTCCTGTGTACATTTGTATGTATGTGCCTGTACATTTGTATGTATGTGTGTTTCTTTGCACTGAGTGTATCTGTAGCCCTCTGTGTCTGGGTGTTTCCATGTACTGGGTGTGTGTTTTTGCTCACTGAGCATATCTCTGTGCATGGGATGACTGTGTGTGTCCCTTTGCCCTGGGATTCTCTGTATCTTCATGGGGAGCATCTGTGTCCCTCTGGGCTGAGGAGGTCCCTGTCTCGCCCCCACTGCAG
Seq C2 exon
TGTCCAGCTGGCTACACTGGTGACAACTGTGAGGATGATGTAGACGAGTGTGCCTCCCAGCCCTGCCAGCATGGGGGCATCTGCATTGACCTCGTGGCCCACTATCTCTGCTCCTGTCCTCCAGGGACACTGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000043971:ENSBTAT00000060960:20
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:
PF0000822=EGF=WD(100=50.0),PF0000822=EGF=PU(67.7=33.9)
A:
NA
C2:
PF0000822=EGF=PD(25.8=17.8),PF0000822=EGF=PU(80.0=62.2)
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:
GGTGCCCACAGAGCAGCT
R:
CTGGAGGACAGGAGCAGAGAT
Band lengths:
308-875
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]