BtaINT0102936 @ bosTau6
Intron Retention
Gene
ENSBTAG00000025424 | NOTCH4
Description
notch 4 [Source:HGNC Symbol;Acc:HGNC:7884]
Coordinates
chr23:26984309-26984982:+
Coord C1 exon
chr23:26984309-26984460
Coord A exon
chr23:26984461-26984829
Coord C2 exon
chr23:26984830-26984982
Length
369 bp
Sequences
Splice sites
5' ss Seq
CAGGTGAGG
5' ss Score
10.07
3' ss Seq
ACCCCACCCACTCCCCTCAGGGC
3' ss Score
10
Exon sequences
Seq C1 exon
GACCAGATCTTCATGTGTGTGTGATGGGGGCTGGACAGGACCAGAGTGTGACACAGATCTGGGGGGCTGTGTCTCCACCCCCTGTGCCCACGGAGGGACCTGCCACCCCCAGCCCTTTGGCTACAACTGCACCTGCCCCACAGGTTACACAG
Seq A exon
GTGAGGCGCTCCCTAAACCATGTATACCCGGGGCTGACCACCATCTAAATCAAAGGCAAGGCCAGTGGAGACATGTGTCCAAAGGGCTCTGGGTCTCAGTCACCACCAAGAAGAACTGGGACTTCCCTGGTGGTCCAGTGGTTAAGACTCTGCGCTTCCACTGCAGGGGGCACGGGTTTGATCCCTGGTCCCGGAACTAAGATTCCACGTGCATGCTGCAGGCACAGCCAAAGAAAACAGTGCAGGAGGTGGTGAGAAAAGAAAAAATGTTGGGTGGGGGAGAACAGTGGGAATGGAGATGAGGAAGGGAAGGAAAGGGAAGAGAGAAAAGGAAGGTTCACTTTCTCAGACCCCACCCACTCCCCTCAG
Seq C2 exon
GGCCCACTTGCAGTGAGGAGGTGACAGCCTGTCACTCAGGGCCCTGTCTCAATGGTGGTTCCTGCAGCCCCAGCCCCGGGGGCTACACCTGCACCTGCCCTCTGAGCCACACGGGGCTCCGCTGCCAGACCAGCATTGACCATTGTGCCTCTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000025424:ENSBTAT00000050083:13
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=PU(90.3=53.8)
A:
NA
C2:
PF0000822=EGF=PD(6.5=3.8),PF0000822=EGF=WD(100=59.6),PF0000822=EGF=PU(9.7=5.8)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Human
(hg38)
No conservation detected
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GACCAGATCTTCATGTGTGTGTGA
R:
AGGCACAATGGTCAATGCTGG
Band lengths:
302-671
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]