BtaINT0102914 @ bosTau6
Intron Retention
Gene
ENSBTAG00000043971 | NOTCH3
Description
notch 3 [Source:HGNC Symbol;Acc:HGNC:7883]
Coordinates
chr7:8948798-8949257:+
Coord C1 exon
chr7:8948798-8949055
Coord A exon
chr7:8949056-8949138
Coord C2 exon
chr7:8949139-8949257
Length
83 bp
Sequences
Splice sites
5' ss Seq
CAGGTGAGC
5' ss Score
9.6
3' ss Seq
ACTCCCTTCTGCTTGCCCAGGTC
3' ss Score
8.44
Exon sequences
Seq C1 exon
GCGTGCTCTGCGAGATTAATGAGGATGACTGTGGCCCAGGCCCAGCCCTGGACCTGGGGCCCCGGTGCCTGCACAATGGTACCTGCGTGGATCTGGTGGGTGGTTTCCGCTGCACCTGCCCCCCAGGATACACTGGCCTGCGCTGTGAGGGGGACATCAATGAGTGTCGCCCAGGTGCCTGCCATGTGGCACATACCCGGGACTGCCTGCAGGACCCAGGTGGGGGCTTCCGCTGCCTGTGTCACCCTGGCTTCACAG
Seq A exon
GTGAGCATGGGAAGAGGGGGCTGGCCTGGGATCCTGCCTGTGTTCCCCACAGGCAGCTGATCCACTCCCTTCTGCTTGCCCAG
Seq C2 exon
GTCCCCGCTGTCAGACTGTCTTGTCTCCCTGTGAGTCTCAGCCTTGCCAGCATGGAGGCCAGTGCCGTCCTAGCCCGGGCCCTGGGGGTGTGCTGACCTTCTCTTGCCACTGCATCCCG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000043971:ENSBTAT00000060960:22
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(17.1=6.9),PF0000822=EGF=WD(100=43.7),PF0764510=EGF_CA=PU(76.1=40.2)
A:
NA
C2:
PF0764510=EGF_CA=PD(21.7=25.0)
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:
ATGTGGCACATACCCGGGA
R:
CAAGAGAAGGTCAGCACACCC
Band lengths:
181-264
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]