RnoINT0102267 @ rn6
Intron Retention
Gene
ENSRNOG00000018835 | Notch2
Description
notch 2 [Source:RGD Symbol;Acc:3188]
Coordinates
chr2:200272620-200273544:+
Coord C1 exon
chr2:200272620-200272733
Coord A exon
chr2:200272734-200273430
Coord C2 exon
chr2:200273431-200273544
Length
697 bp
Sequences
Splice sites
5' ss Seq
CTGGTAAGT
5' ss Score
10.65
3' ss Seq
CACCTTGGTGCCTCTTCCAGGTT
3' ss Score
9.46
Exon sequences
Seq C1 exon
GTTTCAAAGGTGTGCATTGTGAACTGGAGGTGAATGAATGCCAGAGCAACCCGTGTGTAAACAATGGGCAGTGTGTGGACAAAGTCAATCGCTTCCAGTGTCTGTGTCCCCCTG
Seq A exon
GTAAGTGCCAGCCACCTGCCCCTGTGTTCTTCCAAAACACCAAGCCAGCTGACCACAGGAAGGGGGGAGGGGTGGAGTGAATGTGTGTGGGCCAAGCATGAGGAAGTCGTTAAAGCGGCTACTTGGGAAGAGACTTTGTGTATGCTGAGGTGGGGAACTGTTTTAGCCAGTATGTCTTCCAAGTCTCTTGTGGCCCGAAGTCCAAGTCTGTTCTTGAATGGCCCCTGACCTCCCTGTCTGTGTATATATTTCAGAGTGCTCACACCTCACAGAAGTGCAAGATTTTATTTTTTCCTCGTGAGTCATATTTCTAAATCCCAAGACATTTGTTCCATTAAGTCCAGGCCGGCAACAAACGTCAGATTTTTCCGAGGTCTCTGCCTGTGCTGATGTTGAAGGCATGCCAGCCTACTGCTGTGGACAGTGGCTTTTCTACTCAATCTCCAGAGTGAAGGTCCTTGCAGTCTGGGGCTACAGTTACTAGCTTGAGACTCCACCTTTCCGTAGTGTCTCAGTTCTTCTTGCTTCCCCTGGAGATGGTGCAGAGCATTGGGTGTGGAACCCCAGTGCCTCTGACCTCCAAGCTTTGCCTTGGTGACCCCATGGCATTTGCTCTGCTAGTGATTCAACCCACTGTTCCAGTAAAGGAAGATGGGGTCAGTCTCTGATGTGTCTGTCACCTTGGTGCCTCTTCCAG
Seq C2 exon
GTTTCACAGGACCAGTGTGCCAGATCGACATTGACGACTGCTCCAGTACTCCCTGCCTGAATGGGGCCAAGTGCATCGATCACCCGAATGGCTATGAATGCCAGTGTGCCACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000018835:ENSRNOT00000025718:9
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=12.8),PF0000822=EGF=PU(80.6=64.1)
A:
NA
C2:
PF0000822=EGF=PD(16.1=12.8),PF0000822=EGF=PU(80.6=64.1)
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:
GTTTCAAAGGTGTGCATTGTGA
R:
GCACACTGGCATTCATAGCCA
Band lengths:
223-920
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]