RnoINT0102315 @ rn6
Intron Retention
Gene
ENSRNOG00000000442 | Notch4
Description
notch 4 [Source:RGD Symbol;Acc:1303282]
Coordinates
chr20:4349391-4350163:+
Coord C1 exon
chr20:4349391-4349566
Coord A exon
chr20:4349567-4349943
Coord C2 exon
chr20:4349944-4350163
Length
377 bp
Sequences
Splice sites
5' ss Seq
CCGGTAGGT
5' ss Score
9.39
3' ss Seq
GACTGACTCTCTCCTACCAGGGT
3' ss Score
8.83
Exon sequences
Seq C1 exon
GTTTGTGGTAGTGATGGGAGTGGATTTGTCCCGCTGTGGTCCAGAGCATCCTGCGTCCCGCTGTCCCCGGGACTCTGGGCTCCTGCTGCGTTTCCTTGCAGCAATGGCCGCAGTGGGAGCTCTGGAGCCCCTGCTGCCTGGACCCTTGCTGGCTGCTCACCCTCAAGCAGGGACCG
Seq A exon
GTAGGTGATCCCCTACCATTGCCCTTGCCTTAGCGCATCCCGTCTCTGGTAGAGATAAAACTGAAAACCAAAACGTTCTGCGTGGGGCACTCAGCCTAACACCTCTTCTTTGGAATGAATCTCCCCCCTGGCCCATCCGCTCATTGGTCTCCCTTCCTGTTTCCCTGAGGACTTTGTACTAACCTCTGGCATAGCCCAACTATTCTTATGAAAGAATAGAAACTTTCATATCATATCATGTCATACCCTATCCTATCCTATCCTATCCTATGAGCTCTCCTCTAAGCATGTTAACCGTTAACGTCTTAGGCAGGCTACTCCACTGGCCCAATCTTACCAAGAATGGCCCCTTCCTGTGACTGACTCTCTCCTACCAG
Seq C2 exon
GGTCCCCCGCCACCCGGCTTCCCTGGCCCATTCTGTGTTCGCCAGTGGTCGGGGTGCTCCTCCTGGCCCTTGGGGCTCTTCTCGTCCTCCAGCTCATCCGGCGCCGGCGGCGGGAACACGGGGCCCTGTGGCTGCCCCCTGGTTTCATTCGAAGGCCACAGACACAGCAGGCACCCCACCGGCGGAGGCCCCCACTGGGCGAGGACAACATTGGTCTCAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000000442:ENSRNOT00000000513:23
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.233 A=NA C2=0.311
Domain overlap (PFAM):
C1:
PF076847=NODP=FE(92.2=100)
A:
NA
C2:
PF076847=NODP=PD(3.1=2.7)
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:
TGTGGTAGTGATGGGAGTGGA
R:
CTGCTGTGTCTGTGGCCTTC
Band lengths:
343-720
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]