BtaINT0102919 @ bosTau6
Intron Retention
Gene
ENSBTAG00000043971 | NOTCH3
Description
notch 3 [Source:HGNC Symbol;Acc:HGNC:7883]
Coordinates
chr7:8955920-8957678:+
Coord C1 exon
chr7:8955920-8956142
Coord A exon
chr7:8956143-8957593
Coord C2 exon
chr7:8957594-8957678
Length
1451 bp
Sequences
Splice sites
5' ss Seq
GAAGTGAGG
5' ss Score
3.71
3' ss Seq
CTTTCCCACTGTCCCCACAGGAA
3' ss Score
12.93
Exon sequences
Seq C1 exon
GGGAGCCAGTGGAGCTGCCGGAACCAAGCGTGCCGCTGTTACCGCTGCTGGCGGCCAGCGGCATCTTCCTGTTGGTCCTCCTGGTCCTCGGCGTCATGGTGGCCCGCCGCAAGCGTGAGCACAGCACCCTCTGGTTCCCCGAGGGCTTTGCACTGCACAAGGATGTGGCCGTGGGACACAAGGGCCGGCGGGAACCCGTGGGCCAAGACGCTCTGGGCATGAA
Seq A exon
GTGAGGACCCTACCCGATCCCTCACCCCGTCCCTGACTATGGCGGGGCCTGAGCTCTTGAGCCCACCGTCACCGTCACCTGACTCTGACCTCTGACCCCTACCTGACCCTAACTTCAGACTCCAGCTTGGACATCAGTGTTTGTCTCCTTGACCAACGACTCCATAATCCCTAAGGGATCACCCCTGATTTGTGACCCTTGATCCCCTTTCCTATGGTCCAGTTCCCTGACTCAGATCCTTCTGTGACAACCCCCTCCCCCAACCCCAGCCTCTCAGACTTCACCCTGATATGTGTTCCCACATGACCGTGGACCTCATGACCTCTGTCTGCACCCCATCCCCTCACTGGACCCCCTGATCCTATCCTCTGTGAGCCCCAGTACCACTTCTGGCTCTAACCTACCCTGACTTTTTTTGTTTTGTTTTAATTTTTTATTTTTTAATTTATGAAAGTATGATAGCACGTTTACAGAAGACTTGGAAAATACAGAAGAAAGTTACATATAGTTCCACTGTATATTACAATTATTTTTTAAGTAGATAAGATTTTTCATTGGAGTTTCAATATCAAGCTCTCAAAAAATTAACAGAATGAATAGACAGAAAAGCAGAGGGATATGGTAGACCTGAAAAGCAGTATGAGCCAATTCAACATAATTAAGATTATACAATTTTTATACAACAGCAGGGTACAAAATCTTCAAGTTCCCATAGACTATAAACCAGGAGATACTGGCCCATACCCAGGGTCATAAAACAAGGTGCAAAAGTGTCATGGTCTAAAGGTATTGAAATCATATAGTCTGTTCTCTTGTTACTGGAATCATGTTAGAAATCAATATCAAAAGAAATTTGAAAATAACCCACATGTTTATAAGAGCACTGTGACATTTACCGAGAGATCTTTGACTTAGCTATTGAAAGCCTCAAGAGTAACCTACCCTGACTCTTGACCTGACCTCTCTTTCCACCCCAACTCAGTGCTCATTCCCCATGATCCTCAGTCCTGGCCTTGGCCATGATCTCCACCTCCCTGACCGGCCCCTCAAGACTCCAGCCCCACCCTGTCCTAACCCCTGAATTTACCTCTCCTGTGACCCTCTGCCCTCTGCTCCCTCTCCACAACCTCTTTATTCCTGGCTACATCTCTCACCTGCTATGAGGATAACTCTGTCTTCCATGACCTACGATGTCATCTGCTGTAACCCATGCTGTATGCCTGTGACCCTCACCTGTCCCATAGACATCTATCTGCTCTGACCTCTGACTCCACTCCTGTCCCTTCCCCAGTTCCACCTGACTGTCACCCATCACAACCCCTGACAGTATCCCCTGCAACCTTGACCGCATCCTGCATCCCATCCTTGGACCCTATCTCTTGACCCTGAGTACCCTGCCCCTGCTGACCGCATTGTCCCTTCTCCCCTCCCCTTTCCCACTGTCCCCACAG
Seq C2 exon
GAACATGGCCAAGGGTGAGAGTCTGATGGGGGAGGTGGCCACCGACTGGATGGACACAGAGTGCCCAGAGGCCAAGCGACTGAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000043971:ENSBTAT00000060960:27
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.200 A=NA C2=0.517
Domain overlap (PFAM):
C1:
PF076847=NODP=PD(13.8=12.0)
A:
NA
C2:
NO
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:
CAGTGGAGCTGCCGGAAC
R:
CTTCAGTCGCTTGGCCTCTG
Band lengths:
302-1753
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]