BtaINT0102915 @ bosTau6
Intron Retention
Gene
ENSBTAG00000043971 | NOTCH3
Description
notch 3 [Source:HGNC Symbol;Acc:HGNC:7883]
Coordinates
chr7:8949139-8950297:+
Coord C1 exon
chr7:8949139-8949257
Coord A exon
chr7:8949258-8949710
Coord C2 exon
chr7:8949711-8950297
Length
453 bp
Sequences
Splice sites
5' ss Seq
CCGGTAGGT
5' ss Score
9.39
3' ss Seq
TCCCCGCAACCAACCCACAGCCG
3' ss Score
5.48
Exon sequences
Seq C1 exon
GTCCCCGCTGTCAGACTGTCTTGTCTCCCTGTGAGTCTCAGCCTTGCCAGCATGGAGGCCAGTGCCGTCCTAGCCCGGGCCCTGGGGGTGTGCTGACCTTCTCTTGCCACTGCATCCCG
Seq A exon
GTAGGTGGTAGGTGGGGGTGGCCGGTGGTAACAGGGTCTCTGGAAGCAGGTAGGGATGGGGGGTAGGGGGCGTGGCCTCATGGGAGGGTGAGGCTTTTAGGGGACAAGAAGTGGAAGAGGATTTCTGGGAAATGTTGAAATTACCTGGAGGTTGTGTGTGTGTGTCTCTCCGGAATTTGGAGTTGCGGCCTCTTGGGAAAGCTTGGGCTTACCTGTAAGGTGGGGCTGGCAGTGGGAGCCGGGAGAGGTTGGGCCAGACCTCGGGAGATCAGAGGCACAACCTTTCCCAAGTTCTGATCCTCCATATTTCCTTTCCTCTCCCCCTTCAACCCTCAATGCGCTTCTCCACCTTTCCATTTCTCTCACCTTCCCTATTTTCTCCTTCCCTTCTCTCTCCCCCTCTATATCCCCTGCCCCTGCGCTCTTTCTCCCCTCCCCGCAACCAACCCACAG
Seq C2 exon
CCGTTCTGGGGCCCGCGTTGCGAGCGGGTGGCACGCTCCTGCCGGGAGCTGCAGTGCCCCGTGGGTGTCCCGTGCCAGCAGACGGTCCGTGGACCGCGCTGCGCCTGCCCCCCGGGGCTGTCGGGTCCCGCCTGCCGGGGCTCCCGGGGGCTGACCCCCGGGGCCGCCAATGCCAGCTGTGTGACCTCTCCCTGCCTCCACGGGGGCTCCTGCCGCCCGGAGCCGCTCGCGCCCTTCTTCCGCTGCGCTTGCGCGTCAGGCTGGGCCGGGCCCCGCTGTGAGGTGCCCGCGACGATGCCCGAGGTATCCGTGGCGATGCCCGAGGTCCCAGAGGAGCCGGCGTGCCCGAGAGCCGCCTGCGAGGCCAAGAGCGGTGACAAGAACTGCGACCGAGAGTGCAACAGCCCCGGCTGCGGCTGGGACGGCGGCGACTGCTCGCTGAGCGTGAGCGACCCCTGGCGGCAGTGCGCGGCGCTGCAGTGCTGGCTCCTGTTCAACAACAGCCGCTGCGACCCTGCCTGCAGTTCGCCCGCCTGCCTCTACGACAACTTCGACTGCCGCGCCGGCGGCCGCGAGCGCACCTGCAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000043971:ENSBTAT00000060960:23
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=0.005
Domain overlap (PFAM):
C1:
PF0764510=EGF_CA=PD(21.7=25.0)
A:
NA
C2:
PF0000822=EGF=WD(100=16.8),PF0006612=Notch=WD(100=18.9),PF0006612=Notch=WD(100=18.9),PF0006612=Notch=PU(15.0=3.1)
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:
GGGTGTGCTGACCTTCTCTTG
R:
GCATCGCCACGGATACCTC
Band lengths:
353-806
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]