RnoINT0102302 @ rn6
Intron Retention
Gene
ENSRNOG00000000442 | Notch4
Description
notch 4 [Source:RGD Symbol;Acc:1303282]
Coordinates
chr20:4338001-4339485:+
Coord C1 exon
chr20:4338001-4338123
Coord A exon
chr20:4338124-4339325
Coord C2 exon
chr20:4339326-4339485
Length
1202 bp
Sequences
Splice sites
5' ss Seq
CAGGTCAGA
5' ss Score
7.41
3' ss Seq
CCCCGAACCCTCCCACACAGGTC
3' ss Score
6.71
Exon sequences
Seq C1 exon
GCTTTGAAGGGCCACGCTGTGAGACTGAAGCGGATGAATGTCGGAGTGACCCCTGCCCCGTGGGAGCCAGCTGCCTTGATCTTCCCGGGGCGTTCCTCTGCCTCTGCCGGCCTGGTTTCACAG
Seq A exon
GTCAGAGGGCAAGAGGAGGAACTGGGAGGGCGGGCGTGTGAGCCCACTGGGGGCGGGGAGGAGGCTGCTGGGGGGTGTTGGGGGGTCAGGACGGGTAAACAGAATGAGAATGGCCCTTCCTACAAAGAGTACTTAGAATGAGAGCTAGGGACATGGCTCGGAAGCAAAGACCTTGCCAAGTATGTCCCTGGGTTCGGTGCCTGGCACCACAAAAACCAGGACAGGATAAACGAATACTTGAGTGGGTAAAAGCAAGCAACGGAAACTGACAACCTGCACTCGGGACTCAGAATGGAGGGGACGGCGGATGTCCAGAACGGACTCTGTGAAGTCATCCTCTGGCTTCCACTCATGAGCCTGTGGCCCATGCCTGCCAACACACACACTCATACATATACACACTCACACACTCATACACACACGCTCATACATATACACACTCACGCACACTCATACACACACTCATACACACACTCATACACACACTCATACACACACACTCATACACACACTTATACACACATACTTATACACAGACTCATACACACACACTCACACACTCATACACACACACTCATACACAGCACATACACAGACAGCACATACACACTTATACACACTTACACACACACCCACAAACGCATGCTACACAGTCACACACAGCACACACATTCACACAACACACTCATACACACACACTCATACACGGCACACACATACACACTTAAACACACTCAAACCCACTAACACTCGATACACACACAGTCACACATACCACACACACACATACCACACTCATACTCACACATCACATACAACACACACAGCAAACATCACACATACATGCACCACATACAGATGCACACGCACACGCACACACACAAGACACCCATCCTACACACATACACTGGGAGCACAGGGAGGAACAGCACAAGGACAAGAATGAAGAGAGAGGGGAAGATGGGGCTGGGGATTTAGCTTAGTGGTAGAGCGCTTACCTAGGAAGCGCAAGGCCCTGGGTTCGGTCCCCAGCTCCGGAAAAAAAGAACCAAAAAAAAAAAAAAAGAGAGAGAGAGAGGGGAAGAAAGGACTTGTGCATGGGGATTGAGGAAGCCACACCTGGGAGGTGGCCTTTGACCCCTCAGGACATAAAGGGACTTTCTTTCCTCTTAGACTCATCTCCCCCGAACCCTCCCACACAG
Seq C2 exon
GTCAACTTTGTGAGGTTCCCTTGTGTAGCCCCATCCTGTGCCAACCTGGACAGCAATGCCAAGACCAGGAACACAGAGCCCCCTGCCTCTGCCCTGACGGAAGTCCTGGCTGTGTTCCTGCTGAGGACGACTGCCCCTGCCACCATGGCCATTGCCAGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000000442:ENSRNOT00000000513:11
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(16.1=11.9),PF0000822=EGF=PU(90.3=66.7)
A:
NA
C2:
PF0000822=EGF=PD(6.5=3.7)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Chicken
(galGal4)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GCTTTGAAGGGCCACGCT
R:
CATGGTGGCAGGGGCAGT
Band lengths:
270-1472
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]