RnoINT0102314 @ rn6
Intron Retention
Gene
ENSRNOG00000000442 | Notch4
Description
notch 4 [Source:RGD Symbol;Acc:1303282]
Coordinates
chr20:4348897-4349566:+
Coord C1 exon
chr20:4348897-4349280
Coord A exon
chr20:4349281-4349390
Coord C2 exon
chr20:4349391-4349566
Length
110 bp
Sequences
Splice sites
5' ss Seq
AGGGTAAGC
5' ss Score
9.04
3' ss Seq
CTGAGGTGCCTTTCCCACAGGTT
3' ss Score
9.21
Exon sequences
Seq C1 exon
CCCAGCCTACGACCAGTACTGCCGAGATCACTTCCACAACGGGCACTGTGAGAAAGGCTGCAACAACGCTCAGTGTGGCTGGGATGGGGGTGACTGCAGGCCAGAAGGGGATGACTCAGAGGGGGGCCCCTCCCTGGCCCTGCTGGTGGTGCTGAGTCCCCCAGCCTTGGATCAGCAGCTGCTTGCCCTGGCTCGAGTACTGTCCCTGACTCTGAGGGTCGGTCTCTGGGTGAGGAAGGACAGTGAAGGCAGGAACATGGTGTTCCCCTATCCTGGGACCCGGGCCAAAGAGGAGCTGAGTGGAACTAGAGATTCCTCTTCGTGGGAAAGACAAGCCCCTCACACTCAGACCCCGGGCAAAGAGACAGAGTCCCTTGGTGCAGG
Seq A exon
GTAAGCAAGACATGGAGGGGCAGGGGTGTGGGGGACAAATAACAGTTCTTTGGATGGAGCAAAAGGGAAGCTGGGACTGGACAGAGGTCCCTGAGGTGCCTTTCCCACAG
Seq C2 exon
GTTTGTGGTAGTGATGGGAGTGGATTTGTCCCGCTGTGGTCCAGAGCATCCTGCGTCCCGCTGTCCCCGGGACTCTGGGCTCCTGCTGCGTTTCCTTGCAGCAATGGCCGCAGTGGGAGCTCTGGAGCCCCTGCTGCCTGGACCCTTGCTGGCTGCTCACCCTCAAGCAGGGACCG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000000442:ENSRNOT00000000513:22
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.333 A=NA C2=0.233
Domain overlap (PFAM):
C1:
PF0006612=Notch=PD(82.5=25.6),PF068168=NOD=WD(100=39.5),PF076847=NODP=PU(3.1=1.6)
A:
NA
C2:
PF076847=NODP=FE(92.2=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:
GTGAAGGCAGGAACATGGTGT
R:
CATTGCTGCAAGGAAACGCAG
Band lengths:
248-358
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]