RnoINT0102321 @ rn6
Intron Retention
Gene
ENSRNOG00000000442 | Notch4
Description
notch 4 [Source:RGD Symbol;Acc:1303282]
Coordinates
chr20:4352456-4353785:+
Coord C1 exon
chr20:4352456-4352553
Coord A exon
chr20:4352554-4352739
Coord C2 exon
chr20:4352740-4353785
Length
186 bp
Sequences
Splice sites
5' ss Seq
AGGGTGAGC
5' ss Score
7.75
3' ss Seq
CTTTTGGGTCTCCCCGACAGGAG
3' ss Score
8.52
Exon sequences
Seq C1 exon
GAAAAACTGCACTGCACTGGGCCGCTGCAGTGAACAACGCCCGAGCTGCCCGCTGTCTCCTCCAGACTGGAGCGGATAAAGATGCCCAGGACAGTAGG
Seq A exon
GTGAGCCATATTGCAGCCTCTCCACTGCACAAGCCAAAAGCAGGGGAATCCAGCAGGGGGTGGGAGTGGGGGTGGGAGGGAGATCAAAGGGGGCGGGACCCAGCGTCTGGCGGGAGGGTACCGACTCCCGGTGGGCGGAGACTCCCTGACCCTTCCCGTCCCCAAGCTTTTGGGTCTCCCCGACAG
Seq C2 exon
GAGCAGACGCCGCTGTTCCTGGCTGCGCGCGAAGGCGCCGTGGAGGTGGCACAGCTGCTGCTGGAGATCGGGGCAGCGCGGGGGCTGCGGGACCAGGCCGGGCTGGCCCCAGCAGATGTGGCCCGCCAGCGTAGTCATTGGGACCTGCTGACGCTGCTGGAGGGGGCAGGACCGATCACGCAGGAGGCCCGTTCGCACGCACGCAACACGCCGGGGGGCGGGGCCGCGCCGCGCTGCCGGACGCTGTCTGCCGGAGCGCGCCCGCGCGGGGGCGGAGCTTGTCTGCAAGCTCGCACTTGGTCGGTGGACTTGGGAGCGCGCCGAGGGGCGGTATACGCGCGCTGCCGGAGCCGATCAGGAGGCTCTGGAGGCCCCTCCATGCGCGGCCGCAGGCTTTCCGCGGACTCCCGTGGACGACGCGGGGCTAGAGTATCACAGGATGACTGGCCTCGGGACTGGGTGGCCCTGGAAGCCTGCGGCTCTGCCTGCAGTGCGCCGATCCCGCCTCCCAGCCTTACCCCGTCCCCAGAACGCGGATCCCCTCAAGTTTCCTGGGGTCTTCCAGTCCACCAAGAGGTCCCCTTAAACTCGGGTGGAAGGAATCAGAACTAGGCAACTTCGTGGAAGGAAGGAAGTGACACGAACGAGTCTGGAAGGCCCCGGACTTTTAAGGCCAAGCTAAACGTTATGCCCACTTGTCTTCCCCATAGAGTATGAACAGCAATGGCAAGAGGGTTTAGGATGCCCGGATTAGATATGCCGTGCTTTTTCCTGGAAAATAGGGCAGCTCCAAGAGGACAGAGTGGATTTTGAGAATCCCTAAACTGAAACCAAAAACTGTGGGCAAATTGGGTGTAAAATGTTTCTTATGTATGGTTTTCCAGAAGGAGCCTCTGCTATCTACTCCCCAAAAGTAGCTGGCAAATATTTATTGAGCACCTACTATGTGCCAGGTGTTGTGTAGATGATGAAAGCTAACCAGTGGCCAGTCCAGCTGATGACTCCTTGCCCTCTCTCCGCCTTCCCCACAAGGAAACTGGTACAGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000000442:ENSRNOT00000000513:29
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.303 A=NA C2=0.532
Domain overlap (PFAM):
C1:
PF127962=Ank_2=FE(34.4=100)
A:
NA
C2:
PF127962=Ank_2=PD(32.3=14.7)
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:
GAAAAACTGCACTGCACTGGG
R:
CAGGTCCCAATGACTACGCTG
Band lengths:
245-431
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]