RnoINT0102280 @ rn6
Intron Retention
Gene
ENSRNOG00000004346 | Notch3
Description
notch 3 [Source:RGD Symbol;Acc:620761]
Coordinates
chr7:14166746-14169379:-
Coord C1 exon
chr7:14169195-14169379
Coord A exon
chr7:14166879-14169194
Coord C2 exon
chr7:14166746-14166878
Length
2316 bp
Sequences
Splice sites
5' ss Seq
GAGGTAAGT
5' ss Score
11.08
3' ss Seq
CCTTTCTTGCCTCAATACAGTGT
3' ss Score
6.71
Exon sequences
Seq C1 exon
GGGTGCGGTTGGAGCAGCTGTGTCAGGCGGGTGGCCAGTGCATAGACAAGGACCACTCCCACTACTGTGTGTGTCCGGAGGGCCGTATGGGTAGTCACTGCGAACAGGAGGTGGATCCCTGCACAGCCCAGCCTTGCCAGCATGGGGGCACCTGCCGTGGTTACATGGGCGGCTATGTGTGTGAG
Seq A exon
GTAAGTGTGCGTCTCAGGGAGAGGGAAGAGAAGCCAATCATGAGTGAGTGTGTTTCTGTCTCTTGGTGTGCAGATCTCTCCATCTCTCTCTCTCTGTCTTTCTGTCTCTGTGCCTCTGTCTCTCTGTCTCTCTGTCTCTGTGCCTCTGTCTCTCTCTGTCTCTCTGTCTCTCTCTGTCTCTCTCTGTCTCTCTCTGTCTCTGTGCCTCTGTCTCTCTGTCTCTGTCTCTGTCTCTCTGTCTCTGTCTCTCTGTCTCTCTCTCTGTCTCTCTGTCTCTGTCTCTCTCTGTCTCTCTGTCTCTCTGTCTCTGTGCCTCTGTCTTTCTGTCCCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTGTCTCTCTGTCTCTGTGCCTCTGTCTCTCTGTCTCTCTGTCTCTGTCTCTCTGTCTCTCTCTCTGTCTCTCTCCCTCTCTCTCTGTCTCTCTGTCTCTCTCTCTCCCTCTCTCTCTCTCTGTCTCTCTGTCTCTGTCTCTCTCTCTCTCTGTCTCTCTCTGTCTCTGTCTCTCTGTCTCTCTGTCTCTCTCTCTCTCTCTCTCTGTCTCTCTGTCTCTCTCTCTCGGTGTGAGAACAGGAATGTTTCATGTGTGATATGTAAGCACTCTGTACCACTCAGCTTCACTCCTAGTGTGCATGGCTGTCTTTTTATTTATTTATTTATTTATTTATTTATTTATTTATTTATTATTTATTTATTTATTTTTGGCTAGTGTTTTGAGACCTGGTCTCTTTATGAAGCCCTAACTGTCCTGGAATTTGCTATGTAGTTCAAGCTGGCCTCCAACTCACAGCCATCCTTCTGCCTCTGGCTCTAGAGTGCTAGGAGTAAAGGCATGCACCACCATACTTGTCTGCATGTCTTTTCTTACCTCCTCCTTTCTCTTTTTCGAGACAGTCTCACTATGGAGCTCTGACTGGCTTAACCTATTAGATTAATAGATCTGTCTATCTCTGCCTCGTGAGTGCAGGGATTAAAGGAGTGTGCTACCAGGCCTAGCAGTCTTTCCTCCTCCCCTCCCCTCCCCTCCCCTCCCCTACCCTTCCCTCCCCTCCTCCTCCCTCCTCCTTCCCTCCTCTTCTTTCTCCTCCTCTTCTCCTCTTCCTCCTCTTCCTCCTCCTCCTCCTCCTCCTCCTCTTCCTCCTCCTCCTCTTCTTCTTCTTCTTCTTCTTCTTCTTCTTCTTCTTCTTCTTCTTCTTCTTCTTCTTCTTCTTCCTCTTATGGATATATATATATATATATATATATATATATATATATATATATATATATATATATATATCTGTGTGTGCACTGGGTGTACACAGGAGTGTGTTGCAGAGGCCAGGGGAAGACATCAGGTGTCCCCCTCTACCTCTCTACCTTGTTCCTTTGAGGTTTTCTCACTGAACCTCAAGTTAGGCTGGTAGTCGGTGAGTCCCGGTGATCTTCCTGTCTCCCCACCCCACACCTGGGTTACAGACATAGAAGACCACCCCTAGCTTTTTAAGTGGGTACCAAGGATTTGAACTCAAATCCTCACGCATGTGCAGCAAATGCTCTTACCCACTGAACCGTCTCCTCAGCTCCTAACCCTCAAGTCTTTGTGGATGGATTTGGGCCATGCGAGTTTTTGTCTTCAGTTCTGTGTCTCTCCCTGGGTGTGAGTGACTTGTCATTGTGTCTGGACACGTGACTTGGGGTACCTGGGTATTTTTCCTGTGTGTTTGCGTGAGCATATGTCCCTCTGTACTGACTGTGCTGGTGGGCCCTCCCAGTCTCACCCTGACCAAAAGCAATTTGAAGGCGGAAAGGATTTACTTCAGCTTCAGGTCACTGCTACTGGTCATCATTGAGGGAAGCCACGAAAGGAGCCCAATACAGGCCAGAACTAAAGCAGAGACCACGGAGAAATGCTGCTTACTGGATTGCTTCCTTATCCAGCTCAGGCCCACCCGCATGGGGATGGGATTGCCCAGAATGCACTGGGTCCTCCCACATCAATCAGCAGTCAAGAAAATGCCCCACAGACATGCTACAGGCCAATCTGAAGGAGGCAATGTCTCAAGTGAGAGTCCCTCTTCCCAGATATGTCTGGGTTTGGTTCAAATTCACACACACACACACACACACACACACACACACACACACACACCACACACACACACACACACACACACACACACACACACCAAGCACAGTGTGTGTTTCCTTGTACTGGGTAAGTCTGCCCCCTGTACTGGCTGTGTACTCACAGGTATGCCTAGGCGTCTCTGTGTCCCTAAATGGATCCCTTTCTTGCCTCAATACAG
Seq C2 exon
TGTCCAGCCGGCTACTCTGGTGACAGTTGTGAGGATGATGTGGATGAGTGCGCTTCCCAGCCCTGCCAGAATGGAGGCTCCTGTATTGATCTTGTGGCCCACTATCTCTGCTCCTGTCCCCCTGGCACACTGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000004346:ENSRNOT00000037456:20
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=WD(100=48.4),PF0000822=EGF=PU(67.7=33.9)
A:
NA
C2:
PF0000822=EGF=PD(25.8=17.8),PF0000822=EGF=PU(80.0=62.2)
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]