RnoINT0102319 @ rn6
Intron Retention
Gene
ENSRNOG00000000442 | Notch4
Description
notch 4 [Source:RGD Symbol;Acc:1303282]
Coordinates
chr20:4351362-4352013:+
Coord C1 exon
chr20:4351362-4351657
Coord A exon
chr20:4351658-4351865
Coord C2 exon
chr20:4351866-4352013
Length
208 bp
Sequences
Splice sites
5' ss Seq
CAGGTAGGC
5' ss Score
9.88
3' ss Seq
GGCCCTTTCTGTCTCCCCAGCTC
3' ss Score
9.72
Exon sequences
Seq C1 exon
ATGGGGTGACACCCCTGATGTCTGCCGTCTTCTGTGGGGGAGTGCAGTCCACCACTGTACAGAGACTGGGACTAGGAAATCCCGAACCCTGGGAACCACTGCTGGATAGAGGGGCCTGCCCCCAGGCTCACACTGTGGGCACTGGAGAGACGCCCCTGCACCTAGCTGCCCGATTCTCTCGGCCAACTGCTGCCCGACGCCTCCTGGAGGCTGGAGCCAACCCCAACCAGCCAGACCGGGCTGGGCGTACCCCACTTCACACTGCAGTAGCTGCTGATGCTCGGGAGGTTTGCCAG
Seq A exon
GTAGGCACATATCTGGGTTCCTAAAGGAAGTAGGAGTAAGCTTAAATGTGAAATGGAGAGGTCTTCTCTGGAGATAGACAGATCTCTTGAGTGCCAGGCTAGTCTGAGCTGTATAACAAGACATTGTCTCAAAACAAAGACAGGCAACAAAAGCACGAGGAGCCTGACCTAGAAGCCCAGGGGTCACAGGCCCTTTCTGTCTCCCCAG
Seq C2 exon
CTCCTATTGGCCAGCAGACAGACCGCTGTAGACGCGCGCACAGACGACGGGACTACACCTTTGATGCTGGCTGCCAGGTTGGCCGTGGAGGACCTGGTTGAAGAATTGATCGCAGCCCGAGCAGATGTAGGAGCCAGAGATAAAAGGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000000442:ENSRNOT00000000513:27
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.606 A=NA C2=0.160
Domain overlap (PFAM):
C1:
PF127962=Ank_2=PU(84.0=79.8)
A:
NA
C2:
PF127962=Ank_2=PD(13.8=26.0),PF127962=Ank_2=PU(31.2=58.0)
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:
GATGTCTGCCGTCTTCTGTGG
R:
TCTGTCTGCTGGCCAATAGGA
Band lengths:
302-510
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]