RnoINT0102320 @ rn6
Intron Retention
Gene
ENSRNOG00000000442 | Notch4
Description
notch 4 [Source:RGD Symbol;Acc:1303282]
Coordinates
chr20:4351866-4352553:+
Coord C1 exon
chr20:4351866-4352013
Coord A exon
chr20:4352014-4352455
Coord C2 exon
chr20:4352456-4352553
Length
442 bp
Sequences
Splice sites
5' ss Seq
GGGGTATGC
5' ss Score
6.16
3' ss Seq
GCTCCCACGTGGTACCCTAGGAA
3' ss Score
4.24
Exon sequences
Seq C1 exon
CTCCTATTGGCCAGCAGACAGACCGCTGTAGACGCGCGCACAGACGACGGGACTACACCTTTGATGCTGGCTGCCAGGTTGGCCGTGGAGGACCTGGTTGAAGAATTGATCGCAGCCCGAGCAGATGTAGGAGCCAGAGATAAAAGGG
Seq A exon
GTATGCATAGAGCCGCTGTGGTATCGAAATGTTGGGGAGAGCGGGAAGGAGGTGAAGTTCAAACTACAGGCGCAGTAGGGACTACTAGAGGCTCCTAGGCTGTGGCAGTGTGGAGAGCGAGTTTCCCCACCACGGTCAACTACACGTCTTGTCGCAGTCCATGAAACGGGAATGGAAGAAGCACCTGCGGGAACGGGATGGGGATACCCGTCCCACCGACCCAGAACAATACCTATTGTCCCGCCCGCGCGCCCATGACGTCACCAGGGCAGCACTTGCAGCCGACTGTCGGTTGCCTGGGCAATGCTTCCCGCCTCTGAAGAACCCAAGTAGCTCTCCCTTCCTCCCCCCTCCTCCTACCAAGGCCAGAACCCGTGGGAAACTAAAACGTAGCAGTCTGACCCCCAGCTGCGGGGTAACCGGCTCCCACGTGGTACCCTAG
Seq C2 exon
GAAAAACTGCACTGCACTGGGCCGCTGCAGTGAACAACGCCCGAGCTGCCCGCTGTCTCCTCCAGACTGGAGCGGATAAAGATGCCCAGGACAGTAGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000000442:ENSRNOT00000000513:28
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.160 A=NA C2=0.303
Domain overlap (PFAM):
C1:
PF127962=Ank_2=PD(13.8=26.0),PF127962=Ank_2=PU(31.2=58.0)
A:
NA
C2:
PF127962=Ank_2=FE(34.4=100)
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:
CTCCTATTGGCCAGCAGACAG
R:
CCTACTGTCCTGGGCATCTTT
Band lengths:
246-688
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]