BtaINT0102925 @ bosTau6
Intron Retention
Gene
ENSBTAG00000043971 | NOTCH3
Description
notch 3 [Source:HGNC Symbol;Acc:HGNC:7883]
Coordinates
chr7:8968336-8970307:+
Coord C1 exon
chr7:8968336-8968433
Coord A exon
chr7:8968434-8969251
Coord C2 exon
chr7:8969252-8970307
Length
818 bp
Sequences
Splice sites
5' ss Seq
AAGGTGAGC
5' ss Score
9.6
3' ss Seq
GGGTTCCTGGGCCCCCACAGGAA
3' ss Score
6.62
Exon sequences
Seq C1 exon
GAAAATCGGCCTTACACTGGGCTGCAGCTGTCAACAACGTGGAGGCCACCTTGGCTCTGCTCAAAAATGGAGCCAACAAGGACATGCAGGATAGCAAG
Seq A exon
GTGAGCCCCAGCTTTTGGTTCACCTTCAGCCCTGGAACAGCCTCCACAGGCAGCAGAGAGCAGATTGGGGGAGGCTGGTGGGGACATTCACCCTGCCTGTAGCCAGTGTTCACGTGGGATCAGGGCCCAAGAGGTTCCAATAGTGGATCAGGGGAGGAAGTGTATGGCAGTTGCTGGTGACCTTGGGCAAGTTACTTAACTCTTCTGAACTTCTGTTCACATTTTTGAAATGGGGAAGCAACAGTACCCACCTCATCGCCTCTTCCAAGAATTCAGTGAGCTAATGCTTTTGTAAAGTGCTTAGAGGATCCTCAACAAAAGATAGCTATTATGACTGTTGTTTGAAAACCCTTGCAAGGTGGTATTACTCTCATTTTACAAATGGAAAAATGAGGTTCAAAAGAATACAGGGGTAGATTCCATCTTTATCTAAAATATCCATGTTATATTTGTTATGTATATATTTTTGCATTAATCTTAACTTTAAAAACTGCATTAAATACCATTTATTTTGATAGCAGAATTTTTCACCACCCCCTTAAATTCTGTGCCTAAGGTGAGTGCCTCACTCTCCTCACTCTAGTCCTGGCTTTGGGGCCTGAAGTTTCTTAATAGGTGCTGGATGAATAGGGCTTTAAGGAAAGAACTTGCCCAGTTTTTCATCCAGGCAGAACTGAGATTCCAGTCAAGGTCTGTCTGGCTGCAGAGTATGAACTCCTAGCTCTGTTTCCCCCAGAGACTAGAGGCCTCTGTGACGTTAGGCAGGACTTAACCTGACTCTTGACCCTGACATCTTGTGGGTTCCTGGGCCCCCACAG
Seq C2 exon
GAAGAGACTCCACTGTTCCTGGCCGCCCGGGAGGGCAGCTTCGAGGCGGCCAAGCTGCTGCTAGACCACTTTGCCAACCGGGAGATCACAGACCACCTGGACAGGCTGCCCCGGGACGTGGCCCAGGAGAGGCTGCACCAGGATATCGTGCGCTTGCTGGACCAGCCCAGCGGGCCCCGTAGCCCCGCTGGCCCCCACGGCCTGGGGCCCTTGCTCTGTCCCCCCGGGGCCTTCCTCCCCGGCCTCAAGGTGGCGCAGTCCGGGGCTAAGAAGAGCCGGAGGCCCCCGGGGAAGGCGGGGCTGGGGCCGCAGGGCACCCGGGGGCGGGGCAAGAAGCTGACGCTGGCCTGCCCCGGGCCCTTGGCCGACAGCTCGGTCACGCTCTCGCCCGTGGACTCGCTGGACTCCCCGCGGCCCTTTGGCGGGCCCCCCGCGTCCCCTGGCGGCTTCCCCCTCGAGGGGCCCTACGCGGCCGCCACGGCCACGGCTGTGTCTCTGGCGCAGCTGGGTGGCGCGGGCCGGGCGGGTCTAGGGCGTCAGCCCCCTGGGGGCTGCGTGCTCAGCCTGGGCCTGTTGAACCCCGTGGCCGTACCCCTCGACTGGGCCCGGCTGCCCCCACCCGCCCCTCCAGGTCCCTCCTTCCTGCTGCCGCTGGCCCCGGGACCCCAGCTGCTGAACCCCGGGAATCCTGTGTCCCCCCAGGAGCGGCCCCCGCCCTACCTGGCTGCCCCAGGACACGGCGAGGAGTTCCCCGCGGTGGCTGCGGCTCACGGCAGCCCCCCCAAGGCCCGCTTCCTGCGGGTCCCCAGCGAGCACCCTTACTTGACCCCATCCCCCGAGTCCCCCGAGCACTGGGCCAGCCCCTCCCCACCCTCACTCTCGGACTGGTCTGACTCCACGCCCAGCCCGGCCACTGCCACCGGGGCCTCGGCCACAGCTGCTGGGTCCCTGTCGGCCCAGCCGCTCCCCCTGTCGGTCCCTGGCGCTCTTGCTCAGGCCCAGACCCAGCTAGGGCCCCAGCCTGAAGTCACCACCAAGAGGCAAGTGTTGGCCTGA
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000043971:ENSBTAT00000060960:32
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.303 A=NA C2=0.772
Domain overlap (PFAM):
C1:
PF127962=Ank_2=FE(34.4=100)
A:
NA
C2:
PF127962=Ank_2=PD(32.3=8.5),PF119363=DUF3454=WD(100=18.8)
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:
CAGCTGTCAACAACGTGGAGG
R:
GCTCTTCTTAGCCCCGGACT
Band lengths:
350-1168
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]