BtaINT0102913 @ bosTau6
Intron Retention
Gene
ENSBTAG00000043971 | NOTCH3
Description
notch 3 [Source:HGNC Symbol;Acc:HGNC:7883]
Coordinates
chr7:8948581-8949055:+
Coord C1 exon
chr7:8948581-8948713
Coord A exon
chr7:8948714-8948797
Coord C2 exon
chr7:8948798-8949055
Length
84 bp
Sequences
Splice sites
5' ss Seq
TGGGTAGGC
5' ss Score
6.03
3' ss Seq
CCCATCCCCCATCCCCCTAGGCG
3' ss Score
10.21
Exon sequences
Seq C1 exon
TGTCCAGCTGGCTACACTGGTGACAACTGTGAGGATGATGTAGACGAGTGTGCCTCCCAGCCCTGCCAGCATGGGGGCATCTGCATTGACCTCGTGGCCCACTATCTCTGCTCCTGTCCTCCAGGGACACTGG
Seq A exon
GTAGGCCAGGACCAGGGTTTGGGGACAGGTGGGGAGGCTGGGTTTCTGAGCCCTCCTGATGTTCCCCATCCCCCATCCCCCTAG
Seq C2 exon
GCGTGCTCTGCGAGATTAATGAGGATGACTGTGGCCCAGGCCCAGCCCTGGACCTGGGGCCCCGGTGCCTGCACAATGGTACCTGCGTGGATCTGGTGGGTGGTTTCCGCTGCACCTGCCCCCCAGGATACACTGGCCTGCGCTGTGAGGGGGACATCAATGAGTGTCGCCCAGGTGCCTGCCATGTGGCACATACCCGGGACTGCCTGCAGGACCCAGGTGGGGGCTTCCGCTGCCTGTGTCACCCTGGCTTCACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000043971:ENSBTAT00000060960:21
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=PD(25.8=17.8),PF0000822=EGF=PU(80.0=62.2)
A:
NA
C2:
PF0000822=EGF=PD(17.1=6.9),PF0000822=EGF=WD(100=43.7),PF0764510=EGF_CA=PU(76.1=40.2)
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:
CATGGGGGCATCTGCATTGAC
R:
GAAACCACCCACCAGATCCAC
Band lengths:
171-255
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]