RnoINT0102293 @ rn6
Intron Retention
Gene
ENSRNOG00000004346 | Notch3
Description
notch 3 [Source:RGD Symbol;Acc:620761]
Coordinates
chr7:14138495-14142550:-
Coord C1 exon
chr7:14142453-14142550
Coord A exon
chr7:14139802-14142452
Coord C2 exon
chr7:14138495-14139801
Length
2651 bp
Sequences
Splice sites
5' ss Seq
AAGGTGAGC
5' ss Score
9.6
3' ss Seq
CTGCCCCTCCCTCACCTCAGGAG
3' ss Score
9.16
Exon sequences
Seq C1 exon
GGAAATCGGCCTTACACTGGGCTGCAGCCGTGAACAATGTGGAGGCTACCTTGGCCCTGCTGAAAAATGGAGCCAACAAGGACATGCAGGACAGCAAG
Seq A exon
GTGAGCCCAGGGGGGCCAGCGGTGCTACAGCCCCTGTATGTGGCACAGCAGGGTCAGGGATGAGCCTTTCGGGGGCATCCATCTTGCGTGCAGTCCGCTTTCGAGAGTGGGATTCTGGCCTGAAGGCAGTGAGAGCAGATCGGAGGACAAACTTTGCAGTAGTTACCCTGGGGACATTGAGCTCAGTGTTCCCACTGTGACTGGGGAAGCAGCAGCATTCGCTTCAGCTGAGCGTCAGTCAGACTAACTCCTCTGTCAAGCACCGAGCAGATCCTCAGGGAAAGGGTGACAGGTGACTGTCAGAACAACTCGCCAAAGGGCTGGGCTTCTCTTTTATTTGTTACAAGTATTAGGTGTAATAAGAGGTCAGAAGACAACTTGTGGAAGTCAGTTCCCTCTTTCTACTGATTAGGTCCTGTTGCTTGAACTCAGGTCATCAATCACCTCAACCTGTGACCCATCTCACTAACCCTTCCTTTCTAAAACAGGAAATATAAACAATATATACATTTATGCATATATTATATATAAATAATTTATACATATTTTATATATGTGAAATATAAAGCTTTCTTTTTTCTTCTTTCTTTTTTCCTTTCTTTCTTTTTTCCTTTCTTTTTTCCTTTCTTTTTTCCTTTCTTTCTTTTTTCCTTTCTTTCTTTCTTTCTTTTTTTCTTTCTTTCTTTCTTTCTTTCTTTCTTTCTTTCTTTCTTTCTTTCTTTCTTCCTTTCTTTCTTTCTGAGACTGGCTTCCTACTCCAAGTTGGCCTTGAACTCACAATTCCCATATTTCTACTACCTAAATGCTGGTATATGCTCTCATGCCTGGCTATTTTTTCTTTTTTTTTTTAAATAAGATCTATTTATTTATTTATAAGTACACTATAGCTGTCTTCAGACGCACCAGACGAGGGCATCAGATCTCATTACAGATGGCTGTGAGCCACCATGGTTGCTGGGAATTGAACTCAGGCCCTCTGGAAGAGCAGTCCGTGCTCTTCTTTTTTTTTTTTTCGGAGCTGGGGACCGAACCCAGGGCCTTGTGCTTGCTAGGCAAGCGCTCTACCACTGAGCTAAATCCCCAACCCCACAGTCAGTGCTCTTAACCGCTGAGCCATCTCTTTTTCTTCATATTTTATTTTTAAATAGTGCATGCATGTAGGTGGGTGCACATAAATTGCAGGTACCCCTAAGGCAAGAAGAGGGTGTCGAATCCCCCTAGGGCTGCAGTTACAGGCAGTTGTGAGCTGTCCATGTGGGTACCAGGGATGGAATGTGGTTACTCACTGTGACACCTTCTCAGTCTTTATTTTGTTTCCTTTTCTTTTTGAGACCAGGTCTTACTGGTTATTTTAGCAGAAGCTGACCTCAAACTCTTGGTGAATCTTCTGCCTCAGCCTACCAAGTACTGAGATTATAGACTCAGGTTCCTGCTAGGGGAAAAGACCCTGGGATTTCTAATTCCAGGAAAGAGAATTTCTCATAGCACCAGCCTGGCCCTGGGAGGCTTGTTAGTGACTACAGAGCTTCTGGGACAGAAGCTCCAGAGACCCCAGAATATGAGATTGTGGGTCCTCAGCCCCTCCCTTCTTGGGAAGAGAGGGACTTTCACAGGGATGTGAGAACCTATCACAGCTACGGGTAATCACATTCTGGCTACANNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNCTCTCCCTCCCTTCCCTTTTTAAAAGACAAGGACTCTCTCTGTAGCCCAGGCTAGCCTGCAACTAGAATTTACAGAGACCCAATTGCCTTTGTCCCCTGGGTGGTAGGATTAAAGGTGTGCATGACCCCCAGAGTCCCAACACTTGGCTTTTTAGTTTTTTACAACTCGTTGCATCAACATGCAGGGTTTTTATATTTTTATTTTTTTAATTTTTTGATGACTGGCAGTTTTGATGCCCCTTTAAATTTTGTGCCTAAGGTAAGTTCTGGCCAGATGAGCCTACTACAGGGGCATGGTTGCAAGGAGAGCTTATTTCTTCAACAAAGATGGGATCCGAATCCAGGACCATCTATTTTCAGGGTATCAGCTCCTAGTTCTCAGGCTGCCCTAGGGATTAGAGAGCTAGGTGCTGGCCAGAGTGATTGACCTCTGTGGGTTCTGCCCCTCCCTCACCTCAG
Seq C2 exon
GAGGAGACTCCACTGTTCTTGGCCGCCCGTGAGGGCAGCTATGAGGCTGCCAAGCTGCTGCTGGATCATTTTGCCAACCGGGAGATCACAGATCACTTGGACAGGCTGCCCCGGGATGTGGCCCAGGAGCGGCTGCACCAGGACATTGTGCGGTTGCTGGACCAGCCCAGTGGCCCCCGAAGTCCCTCTGGTCCCCATGGCTTGGGGCCATTGCTCTGCCCACCAGGAGCCTTCCTTCCTGGCCTCAAAGCGGTGCAGTCTGGGACCAAGAAGAGCAGGAGGCCACCTGGCAAGACTGGGCTGGGGCCCCAGGGAACTCGGGGTCGGGGCAAGAAGCTGACACTGGCCTGTCCAGGCCCTCTGGCAGACAGCTCTGTCACACTGTCACCAGTGGACTCGCTGGACTCACCACGGCCTTTCGGTGGGCCCCCTGCTTCCCCTGGAGGCTTCCCCTTGGAGGGTCCCTATGCCACCACAGCCACCACGGTGTCCTTGGCACAGCTGGGTGCAAGTCGGGCGGGTCCTCTGGGGCGCCAGCCTCCTGGGGGCTGTGTGCTCAGCCTTGGTTTGCTCAACCCTGTGGCTGTTCCCCTTGACTGGGCCCGGCTGCCTCCACCTGCCCCTCCAGGGCCCTCATTCCTGCTGCCCCTGGCTCCGGGATCCCAGCTGCTCAACCCGGCAACCCCAGTTTCTCCCCATGAGCGGCCCCCACCCTACCTGGCTGCTCCAGGACATGGAGAGGAATACCCTGCAGCAGGGACCCACAGCAGCCCCACAAAGGCCCGCTTCCTGCGGGTTCCCAGCGAGCATCCTTATTTGACCCCATCTCCTGAGTCCCCAGAGCACTGGGCCAGCCCGTCCCCTCCCTCCCTCTCAGACTGGTCCGACTCAACGCCTAGTCCAGCAACTGCTACCAGTGCCACAGCCGCTGGAGCCCTGCCTGCTCAACCACACCCCATATCTGTTCCCTCCCTCCCTCAGTCCCAGACTCAGCTGGGGCCCCAGCCAGAAGTAACCCCCAAGAGGCAGGTGATGGCCTAAGTTCTTGGATTTTGGAGGGGCGTTGAAGTGGCACCCCTCCCTGGCTTCTCTCTCCCCCCCTTTTAATCTCGCTCTCATCCCTTTATCTCTGTACCAGCTTTCCTGAACCTCTCTGTCTTGAAGTGTGACAGAGTTGGTCACCAGCCCAGACCCCCAGTCTTCCTTTATTTATAATGGGTAGGGGCTGACCTCCCACCACCTCGGCCCTCTAAGGGGTCTGGGACCTCCTCTCGATCCCTCTTCCGGCTTCCACTTCCTTTTTTCCC
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000004346:ENSRNOT00000037456:34
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.303 A=NA C2=0.832
Domain overlap (PFAM):
C1:
PF127962=Ank_2=FE(34.4=100)
A:
NA
C2:
PF127962=Ank_2=PD(32.3=8.6),PF119363=DUF3454=WD(100=21.9)
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:
No suggested primer sequences
R:
No suggested primer sequences
Band lengths:
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]