RnoINT0102307 @ rn6
Intron Retention
Gene
ENSRNOG00000000442 | Notch4
Description
notch 4 [Source:RGD Symbol;Acc:1303282]
Coordinates
chr20:4342298-4343075:+
Coord C1 exon
chr20:4342298-4342385
Coord A exon
chr20:4342386-4342924
Coord C2 exon
chr20:4342925-4343075
Length
539 bp
Sequences
Splice sites
5' ss Seq
CAGGTGAGG
5' ss Score
10.07
3' ss Seq
TGTTCTTTCCCAACCCTCAGACT
3' ss Score
8.95
Exon sequences
Seq C1 exon
CCCCTGCAGGAACAAGGCAACCTGCCAAGACACACCTCGAGGGGCCCGCTGCCTCTGCAGCCCTGGCTACACAGGAAGCAGCTGCCAG
Seq A exon
GTGAGGTGGTCGTAAGCCGGATGTGTCAGTGAGAGAGCTGCAGGCATTGGGATCTAAAGGGTGGGCACCAGGGAGACTCAGACAGACGTCTGCATGAAGGGACATACGGATGCCGGGAGCATCTCACTTGGGTGTGAGGTAAGGGAAGGAAAGAAAATCTGGGTATGGTATAATCTATAATCCTGACACTTGGGAAGCACAGGCTGAAGGATCAGGAGTTCAAGGACAGCCTTAGCTACATAGCAAGTTTGAGGCATTCCTGGGGTAGGTGAGACCGTACCCTACACACACACACACACACACACACACACACACACACACACACGCGCGCGGGCGCCTGGGCGTGAGGATGTACGTGGCGTGAGTGTCTCATCCTGGAGGCTGTTCTGAAACATGAAGCCAGAGGTCAGAGAAGATCACCAGCTCGGGCCAATTGCAAGGATGTCATCTTAGAAGCGATTTTGAGGGAGCTATAAGTGGAGAGTCTCATCTCTGAGTCCCAGAAGCCTGCCCATCTCCTGTTCTTTCCCAACCCTCAG
Seq C2 exon
ACTCTGATAGACTTGTGTGCCCGGAAGCCCTGTCCACACACTGCCCGATGCCTCCAGAGTGGGCCCTCCTTCCACTGCCTGTGCCACCAGGGATGGACAGGGTCTCTCTGTGACCTCCCACTGTCCTGCCAGGCGGCCGCGATGAGCCAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000000442:ENSRNOT00000000513:16
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0000822=EGF=PD(87.1=90.0)
A:
NA
C2:
PF0000822=EGF=WD(100=60.8)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CCCCTGCAGGAACAAGGC
R:
GCCTGGCAGGACAGTGGG
Band lengths:
222-761
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]