RnoINT0102304 @ rn6
Intron Retention
Gene
ENSRNOG00000000442 | Notch4
Description
notch 4 [Source:RGD Symbol;Acc:1303282]
Coordinates
chr20:4340764-4341289:+
Coord C1 exon
chr20:4340764-4340909
Coord A exon
chr20:4340910-4341136
Coord C2 exon
chr20:4341137-4341289
Length
227 bp
Sequences
Splice sites
5' ss Seq
CGGGTGAGT
5' ss Score
9.89
3' ss Seq
GAGCTCACCTGTTCCCTCAGGGC
3' ss Score
7.08
Exon sequences
Seq C1 exon
ATCCTTGTGTGTGTGTAACGAGGGCTGGACTGGACCAGAGTGTGAGACAGAGCTGGGCGGCTGCCTCTCCACACCCTGTGCCCATGGGGGGACCTGCCACCCACAGCCCTCTGGCTACAACTGTAGCTGCCTTGCAGGCTACACGG
Seq A exon
GTGAGTTTCTCCTACACCACACACACTCCAGCCTGCAGCCCCACAAACCAAACCTGTGGCTGCAACCTCTTCGAGGAGAGTCGGTGCGGGCTGTGGGGGACACGGGTGACTCCTGGGGTGGGGTGGGGTAGAAAGAAGAGGTCGGATGGGGCAGGGAGATATAGGATAGGTGAACAAGAAGACAGAGAAGAGAACTCCATATTTTCAGAGCTCACCTGTTCCCTCAG
Seq C2 exon
GGCTGACCTGTAGTGAGGAGATAACAGCTTGTCACTCAGGGCCCTGTCTCAATGGTGGCTCCTGCAGCATCCATCCTGAGGGCTACTCTTGCACCTGCCCTCCAAGTCACACAGGTCCCCACTGCCAGACTGCCGTGGACCACTGTGCGTCTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000000442:ENSRNOT00000000513:13
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=56.0)
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
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TTGTGTGTGTGTAACGAGGGC
R:
CAGACGCACAGTGGTCCAC
Band lengths:
295-522
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]