RnoINT0102318 @ rn6
Intron Retention
Gene
ENSRNOG00000000442 | Notch4
Description
notch 4 [Source:RGD Symbol;Acc:1303282]
Coordinates
chr20:4350464-4351657:+
Coord C1 exon
chr20:4350464-4350602
Coord A exon
chr20:4350603-4351361
Coord C2 exon
chr20:4351362-4351657
Length
759 bp
Sequences
Splice sites
5' ss Seq
CTGGTACAC
5' ss Score
2.74
3' ss Seq
GTACTCATTCTCATCCACAGATG
3' ss Score
9.86
Exon sequences
Seq C1 exon
GCAGAAAAAACAGCCTCAGCCTCCAGGTGCCAGCTCTGGCCACTGCGCAGCGGCTGTGAAGGGCTCCCACAGGCAGTCATGCTGACCCCTCCTCAGGAGTGTGAATCAGAACTTCCAGATTCGGACACCTGTGGACCTG
Seq A exon
GTACACAAGCCACCTAGACCAAGTGGGGGAGTGGGAGGTCCTACTCTTGACCCTTTTAGAAGCAAAGGCCATTAGTATCCACACTGGAGAGCCTTTAGAGCTCCCAGGGCAGAGGCCCCAGAGAGAACGGGCACCACCTGGGGACGTGTCAAAAATACAAGCTGTGGTAGAGCAATGGGACCAGCCCTCTAGGGAAGGCTGACTCAGGTTCAAGCCTCAGCTCTGAGAATTAAGCCCTTCCTGCTCCGGTTACTGATAAACTGAGCCTCAGAGAGGTGGATGAAGATACCAAATCAAGCCGGTTGGTGGTGGTGCACGCCTTTAATCCAAGCACTCGGGAGGCAGAGGCAGGCAGATCTCTATGAGTTCGATGCCAGCCTGGTCTACAAGTTCCAAGACAGCCGGCACTACACAGAAAAACCCTGTCTTTAAAAAAACAAAACAAAAAAACAAACCACTGAATCAAGAGCCAACACTTGGCTGGCAACTGTGGTACACACCTTTAATCCTAGAAGGAAGTAAAGTTTTAGTCCTAGCACGAGAGAAGCAGAAGTAGGTGGATCTCTGCGAGTTCGAGACCAGCCTGGTCTAGTGAGTTCCAGGACAGTTGGAGCTACATACTGAGAACCTGTCTCAAGCATCCCTCTCCCCTACCCCCCAAAAAGGAAGAGCTTGGCCAAGATGGCTGCAATTCTCCCAGGGGCGTGTCATTATTCTCGGATCCTTCCAAATTGGCCTAGTACTCATTCTCATCCACAG
Seq C2 exon
ATGGGGTGACACCCCTGATGTCTGCCGTCTTCTGTGGGGGAGTGCAGTCCACCACTGTACAGAGACTGGGACTAGGAAATCCCGAACCCTGGGAACCACTGCTGGATAGAGGGGCCTGCCCCCAGGCTCACACTGTGGGCACTGGAGAGACGCCCCTGCACCTAGCTGCCCGATTCTCTCGGCCAACTGCTGCCCGACGCCTCCTGGAGGCTGGAGCCAACCCCAACCAGCCAGACCGGGCTGGGCGTACCCCACTTCACACTGCAGTAGCTGCTGATGCTCGGGAGGTTTGCCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000000442:ENSRNOT00000000513:26
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.596 A=NA C2=0.606
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF127962=Ank_2=PU(84.0=79.8)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Mouse
(mm9)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TCATGCTGACCCCTCCTCAG
R:
CCGAGCATCAGCAGCTACTG
Band lengths:
347-1106
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]