BtaINT0102916 @ bosTau6
Intron Retention
Gene
ENSBTAG00000043971 | NOTCH3
Description
notch 3 [Source:HGNC Symbol;Acc:HGNC:7883]
Coordinates
chr7:8949711-8952257:+
Coord C1 exon
chr7:8949711-8950297
Coord A exon
chr7:8950298-8951924
Coord C2 exon
chr7:8951925-8952257
Length
1627 bp
Sequences
Splice sites
5' ss Seq
CAAGTGAGT
5' ss Score
9.1
3' ss Seq
CAGCCCTCCTCCTCCCCCAGCCC
3' ss Score
7.28
Exon sequences
Seq C1 exon
CCGTTCTGGGGCCCGCGTTGCGAGCGGGTGGCACGCTCCTGCCGGGAGCTGCAGTGCCCCGTGGGTGTCCCGTGCCAGCAGACGGTCCGTGGACCGCGCTGCGCCTGCCCCCCGGGGCTGTCGGGTCCCGCCTGCCGGGGCTCCCGGGGGCTGACCCCCGGGGCCGCCAATGCCAGCTGTGTGACCTCTCCCTGCCTCCACGGGGGCTCCTGCCGCCCGGAGCCGCTCGCGCCCTTCTTCCGCTGCGCTTGCGCGTCAGGCTGGGCCGGGCCCCGCTGTGAGGTGCCCGCGACGATGCCCGAGGTATCCGTGGCGATGCCCGAGGTCCCAGAGGAGCCGGCGTGCCCGAGAGCCGCCTGCGAGGCCAAGAGCGGTGACAAGAACTGCGACCGAGAGTGCAACAGCCCCGGCTGCGGCTGGGACGGCGGCGACTGCTCGCTGAGCGTGAGCGACCCCTGGCGGCAGTGCGCGGCGCTGCAGTGCTGGCTCCTGTTCAACAACAGCCGCTGCGACCCTGCCTGCAGTTCGCCCGCCTGCCTCTACGACAACTTCGACTGCCGCGCCGGCGGCCGCGAGCGCACCTGCAA
Seq A exon
GTGAGTCCGTCCTCAGTCTGGGTCTTGTCTGTCCATGTGCCACATCTGACCACCCATGGGCCCTGCTTCTCTGTTGTCCATCCATTTGCCTTGATCTGTCAGTCCGTCCTCAGTCTGTCTGTTGGGCTGTCCCTTCGTTTGCCCTGTTTCTTGGTGTACTTTGTCCATCTGCGTGCAGTTTGTCTGTCTGTGCCCCTCACCTAGCCATCCACGTGCCATTTATGCATGTCTGCCTGTCTTCCCATTCTTGTGCTCTGTCTGTACATCTTCGTTCCCTGCCTATCAGCGTGGCAGTTTGTCCATCCATTAGCCCTTTCTGTTTTTCTGTCTGCCTCTGCACTCCATCCGTCCCTCTTTATACCCTGTTTGTTGGTCTTTCTGTCCATCCATGAATTCGTTTTGTCCCTCTATGCACCTAGCTGTCTGTCTGCACCCCTGCTTGTCCATCCTCGGACCTCACCTGTCCATTTGTCGGTCTCTATGCCAGTCTGTCTCTCTATGTGCCCTATCTGTCCATCTGCACACCTTTGTGCCCCACCTGTTCATTCATGTGCCCCTTCTGTCCTTATGTCCACCCATGCGTGTTTTTGCCCCTCTATATGCTCATCTATCCATGGCCCTGCTGGTCTTTCCCTGCCCCTCTTCTGACCTTCTCAGTCTGTTCATGAGGCCTGTCTATCTGTCTCATACATTCTATGTATTCATCCACATTCTCTGCCCTGTCTGACCCTCTGTCCCTCTGTCTCCCCCGTCTCATTCTGCTCCAGCCATCCTGGCCTTTTTTCCAGTCTTTAGATTCCCCAGGCTTGGTCCCATCTCAGGGCGTTTGCACTGGCTGTTCGCTCTGCCGGGATGCTGTCCTTCAGGAAGTCACATGGCTCCTCCCTCATCTCCTTCAAGTCTTTGCTCAAGCACAAGTCTCTCCGTGAACACCTTCCTGGCCACCCACAGCACTTCCTCTGCTTAATTTCTTCCCTTAGCATTTAATTCGTGTGTGTGTATGTTTACATTTAGCCTTTATTGTTGTGTAATCAAAATACTGTATGTTCTGCTCATTCATCATTTTTAATATATGTCTCTGCCCATTGTAATGACAGCTTCAAGTGGGTAAGGTTTTGTGTTGGGGCCATATCCTTAGTGGACTTCCCCAGTAGCTCAGTTGGTAAAGAATCTGCCTGCAATGCAGGAGATCTGGATTTGATCCCTGGGTGGGAAAGATTCCCTGGAAAAGGGAAAGCTACTCACTTCCGTATTCCTGCCTGGAGGATTCCATGGACAGAGGAGCCTGGCAGACCACCATCCATGGGATCTCAAAGAGTTAGACACGACTGAGTGACTAAGGTTTTTCACTTCACTCATATCCTTAGCTCCTATAACTGCGCTCAGCACCTAGGATGCAGTTGTCAATAGTTACTGACTTATTAATAATTGTAAAGCAACTGGCTGGTTTTGCAGAAAGCCTGATACATTCCACAGGCATGTGGATACGTTCCAGTTCTCTGCTCCCTGAAGAATCTTGGGTGCTTTGCGGTGTATTCGGGCAGCGTGGGGCAAGGTGGGGGCATGTGGGGTGGGGGGTGGGAGTTGGGGGAGAGGCTCCCTTGACCCAGCCCTCCTCCTCCCCCAG
Seq C2 exon
CCCAGTGTATGAGAAGTACTGCGCAGACCACTTCGCTGACGGCCGCTGCGACCAGGGCTGCAACACGGAGGAGTGCGGCTGGGATGGCCTGGACTGTGCGGGTGAGGTGCCGGCCCTGCTGGCCCGAGGCGTCCTGGTGCTCACAGTGCTGCTGCCGCCGGAGGAGCTGCTGCGCTCCAGCGCCGACTTCCTGCAGCGGCTCAGCGGCATCCTGCGCACCTCGCTACGCTTCCGTCTGGACGAGAATGGCCAGGCCATGGTCTTCCCTTACCACCGGCCAGGGCCTGGCGCTGAATCCCGGAACCGGCGGGAGCTGGCCCCTGAGGTGATTGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000043971:ENSBTAT00000060960:24
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.005 A=NA C2=0.089
Domain overlap (PFAM):
C1:
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)
A:
NA
C2:
PF0006612=Notch=PD(82.5=29.5),PF068168=NOD=WD(100=50.9),PF076847=NODP=PU(4.6=2.7)
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:
CAAGAACTGCGACCGAGAGTG
R:
CACTGTGAGCACCAGGACG
Band lengths:
358-1985
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]