RnoINT0102317 @ rn6
Intron Retention
Gene
ENSRNOG00000000442 | Notch4
Description
notch 4 [Source:RGD Symbol;Acc:1303282]
Coordinates
chr20:4350300-4350602:+
Coord C1 exon
chr20:4350300-4350369
Coord A exon
chr20:4350370-4350463
Coord C2 exon
chr20:4350464-4350602
Length
94 bp
Sequences
Splice sites
5' ss Seq
GAGGTAGGC
5' ss Score
8.99
3' ss Seq
GGCCTTGCTCTTGCCCCAAGGCA
3' ss Score
6.1
Exon sequences
Seq C1 exon
GGCGCTGAAGCCAGAGGCAGAAGTGGATGAGGACGGAGTGGTCATGTGCTCGGGCCCTGAAGAGGGCGAG
Seq A exon
GTAGGCCAGGTGAAACTGTGTGTAGTGAGGCCGTGTGGTCTACAGGTGACAGTGGCAAGAAAAATCAACTCACTGGCCTTGCTCTTGCCCCAAG
Seq C2 exon
GCAGAAAAAACAGCCTCAGCCTCCAGGTGCCAGCTCTGGCCACTGCGCAGCGGCTGTGAAGGGCTCCCACAGGCAGTCATGCTGACCCCTCCTCAGGAGTGTGAATCAGAACTTCCAGATTCGGACACCTGTGGACCTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000000442:ENSRNOT00000000513:25
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.750 A=NA C2=0.596
Domain overlap (PFAM):
C1:
NO
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:
CGGAGTGGTCATGTGCTCG
R:
GTCCACAGGTGTCCGAATCTG
Band lengths:
173-267
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]