RnoINT0102255 @ rn6
Intron Retention
Gene
ENSRNOG00000018835 | Notch2
Description
notch 2 [Source:RGD Symbol;Acc:3188]
Coordinates
chr2:200308920-200309944:+
Coord C1 exon
chr2:200308920-200309130
Coord A exon
chr2:200309131-200309847
Coord C2 exon
chr2:200309848-200309944
Length
717 bp
Sequences
Splice sites
5' ss Seq
GAAGTAAGG
5' ss Score
6.38
3' ss Seq
CTCCCCTGAATAATCATCAGGAA
3' ss Score
4.37
Exon sequences
Seq C1 exon
GTGAATCGGAGGATCCAAGGAACACTCCGCTCCTCTATCTGCTTGCGGTTGCTGTGGTCATTATCCTGTTCCTCATCCTGCTGGGGGTCATCATGGCAAAGCGGAAGCGCAAGCACGGCTTCCTCTGGCTGCCTGAAGGCTTCACGCTTCGCCGAGACTCCAGCAATCACAAGCGCCGTGAACCTGTGGGGCAGGATGCCGTGGGGCTGAA
Seq A exon
GTAAGGAATTTACAATAAGCCAGTATCCACAGGGAGAAGCAGGGATGAGCAGGAGGGCATATTATGGAATCCTAACTTCAAATTTTCAACCTCCCCTTTATTCGCCCTGACCACAGCTCCTAGTGGCTTGTCCGAGTCTGTGAGCATTGTGTGTACACATATTGCAGCCACACTCAGCGTCTGAGTGGGGGAACACGTTTGATGTGGTCTCTTAGTGAGAAGAGAAAGGATGAGTGCTCAGAAATGTCAAACATTGCCCATCAGGGCTGGTGTGGTGGCTCAGTAGGTGAACGTCTCCCCCGCCCCCACAAGCCTGCTGACCTGTTTGATCCCCGGTACCCGCATGGTAGAAGGATGGAGCTGACGTCCTCATGTTGTGCTGTGAGTGTATGATGTAATGAAAGGGGCTAGAAGGATACCTTGGTAGTCAAGAATATGAACTGACCTGGGTCAGCTCCCAGCACCCATGCTGGGTGGCCTGGCTGTAATTCCAGCTGCAGGGGGATCTGTAGACACCTGAACTCACGTGCTCATATACACACAGACATGCACACTCAATTTTGAAAAATATTACTGTAATTTTGAAAAAGTGCTGTGCATCCGATCCCATTGGACCAAGTCAGAGGCTAACATGAGAGTGTGCGGTGAAGTACAGAAAGCCACTGCGTTTGCCCAGCCATAACCTGTACTCTTGTCTCTCCCCTGAATAATCATCAG
Seq C2 exon
GAATCTCTCAGTGCAAGTGTCAGAGGCAAACCTGATCGGCTCCACGACAAGCGAGCATTGGGGTGATGATGAAGGACCCCAGCCAAAGAAAGCCAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000018835:ENSRNOT00000025718:28
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.183 A=NA C2=0.576
Domain overlap (PFAM):
C1:
PF076847=NODP=PD(14.8=12.7)
A:
NA
C2:
NO
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:
TCGGAGGATCCAAGGAACACT
R:
CTTGGCTTTCTTTGGCTGGGG
Band lengths:
303-1020
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]