RnoINT0102316 @ rn6
Intron Retention
Gene
ENSRNOG00000000442 | Notch4
Description
notch 4 [Source:RGD Symbol;Acc:1303282]
Coordinates
chr20:4349944-4350369:+
Coord C1 exon
chr20:4349944-4350163
Coord A exon
chr20:4350164-4350299
Coord C2 exon
chr20:4350300-4350369
Length
136 bp
Sequences
Splice sites
5' ss Seq
CAAGTGAGA
5' ss Score
5.26
3' ss Seq
TACCCACTCACCCTCTCCAGGGC
3' ss Score
8.87
Exon sequences
Seq C1 exon
GGTCCCCCGCCACCCGGCTTCCCTGGCCCATTCTGTGTTCGCCAGTGGTCGGGGTGCTCCTCCTGGCCCTTGGGGCTCTTCTCGTCCTCCAGCTCATCCGGCGCCGGCGGCGGGAACACGGGGCCCTGTGGCTGCCCCCTGGTTTCATTCGAAGGCCACAGACACAGCAGGCACCCCACCGGCGGAGGCCCCCACTGGGCGAGGACAACATTGGTCTCAA
Seq A exon
GTGAGACTCTCTGAGGGTCTGGGGTTCAGGGGAATGCCAAGGGTGCTAAGAACTACTCTGCAGAAGTGGAGGGGTCGGAAGGAGATGTGGGAGATGCTGATTGGCCGTAGCCTAACTACCCACTCACCCTCTCCAG
Seq C2 exon
GGCGCTGAAGCCAGAGGCAGAAGTGGATGAGGACGGAGTGGTCATGTGCTCGGGCCCTGAAGAGGGCGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000000442:ENSRNOT00000000513:24
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.311 A=NA C2=0.750
Domain overlap (PFAM):
C1:
PF076847=NODP=PD(3.1=2.7)
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
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:
TTCCCTGGCCCATTCTGTGTT
R:
ACATGACCACTCCGTCCTCAT
Band lengths:
249-385
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]