RnoINT0102285 @ rn6
Intron Retention
Gene
ENSRNOG00000004346 | Notch3
Description
notch 3 [Source:RGD Symbol;Acc:620761]
Coordinates
chr7:14159951-14162526:-
Coord C1 exon
chr7:14162194-14162526
Coord A exon
chr7:14160106-14162193
Coord C2 exon
chr7:14159951-14160105
Length
2088 bp
Sequences
Splice sites
5' ss Seq
CGGGTGAGT
5' ss Score
9.89
3' ss Seq
CCTCTGCTCGGTCCCTGCAGCTC
3' ss Score
9.75
Exon sequences
Seq C1 exon
CCCGGTTTATAAGAAGTACTGCGCCGACCACTTTGCAGATGGCCGTTGTGACCAGGGCTGTAACACCGAGGAGTGTGGCTGGGATGGGCTGGACTGTGCCAGTGAGGTCCCGGCCCTTTTGGCCCGGGGGGTTCTGGTCCTCACAGTTCTTCTGCCTCCTGAAGAGTTGCTTCGCTCTAGTGCCGACTTCCTGCAGCGACTCAGCGCTATTCTGCGCACCTCGCTGCGCTTCCGCCTGGATGCACGTGGCCAAGCCATGGTCTTTCCCTACCACCGGCCAAGTCCTGGCTCCGAATCCCGGGTTCGTCGTGAGCTTGGCCCAGAGGTGATCGG
Seq A exon
GTGAGTGACTGTGGCCCAGAACTGGGTAGAGTGCTTAGGGCACCCATGATCCAGACCTGTTTCACGCTTCTTAGTTGAGAGCGCTCTTGGCCACGCATCTTCCACAGGTTTTTCAGTGTCTGTCGGGTTGGCTTCTTTGCCGTGGGTGGGGTTCATCCTGTGTACACTACAGGGAGCCGACCTGCAATGCTGTAGGTTTTTTTGTTTGTTTGTTTGTTTGTTTGTTTGTTTGTTTTTGTTTTTGTTTTTCGGAGCTGGGGACGGAACCCAGGGCCTTGCGCTTGCTAGGCAAGCGCTCTACCACTGAGCCAAATCCCCATCCCCCCCCTTTTTTTTATCCTTCAAATGCAGGTGACAGAACCTTGTTGCGGTGACAATGAGAAATGCCTCTTAAATATGAATGTGACCCTTGGGAGGGTAGGGGTTACAAAATCGCACCTTGGGGCTAGTGCTACTCAATCAGGAGAGGCAGATTATTTTCAGAGCAGTTAAAGGCATGCGTGCCCTTTAAAAATAATAACTTTAATTAAAAAGTATTTATTATTGCTAGGCAGTGGTGGCGTACACTTCTAGTCTAGCACTTGGGAGGCAGAGGCAGGCAGATCTCTGAGTTCCTAGTCTGGTCCACAGATCTAGTTCTGGGACAGCCAAGGCTACACAGAGAAACCATGTCTTGAAAAATAAAAACAGAGGGCTGGAGAGATGGCTCAGCGGTTAAGAGCACCTAACTGCTCTTCCAGAGGTCATGAGTTCAATTCCCAGCAACCACATGGTGGCTCACAACCATCTGTAATGGGATCTGATGCCCTCTTCTGGTGTGTCTGAAGACAGCTACAGTGTACTCATATATAATAAATGAATAAATCTTAAAAAAAAGAAAAACAAAAGCAACAGCAAGAAGAAAGGATTTATTATTGTCTATGATATGTGTGTGTAGGTCCCCAAGTGCTATGACACTCGTGACACTGCATGCATGTAGAGGTTAGAGGACAACTTTGTGAAGTCAGTTCTCTCTTTTCTTAAGGTTGTCAGGCTTGTGTGATAAGCACTTTGACCCATGAGCCATTTTGCTGTCTTGTTTGTTATTTTCTTCTTGCTGTTTGCTTTGTTTGTGTTTTATAGGCAATGGCCTGAAATTCAATCTGTAGCCCAGGTTGGCTTTGAACTCATGGTTCACCTACCTCAGTCTTCCCAAGTACTAGGGCTATAGCGTCCTATCACACTATCACCCCTGACACTCACTCTCTTTCCTCCCCCCTCTCTTCTTTCCCCTTCCCCCTCATCTCATGGAAGTTGTAGAACTTGCTCATTAGTGACCTGGTAGGGGAACCTGAACTGGGAGAGGCATTTGTTGAGGGTGGACCGGGGCCTGAGGATTGGGCTCTGACAAAGGAAGGAGGGCTGAACTTTAGAGACCCTGTGGCTTGTGGGTTCTGTTTGGATGCAGGCAGAAGTCAAGGAGATGGGTGAGGTGGTGCATGGGCCCTTGGCTAAAGTGGCTTAAGTGATGAGGACACAGGGTGTTAAAGGTGCCATTTGGAGCTTGCTGTTCTTAAAGGGTCTCAAAGTATGGGGAGGCCCTCCAGGAGGTGACTGAGGCCTGAAGATGGGTACAAGACAACTGGGTATCGGAGGTCATTGGAAGGGAAGAAGGGAGAGTCAAGGAAGCAGGAGAGAAGGAAGAAGAAGGTATCTAAGGAATCTTAGAGACCTAAGGATCGAGGGACATTAGGAGATGTGGCTCAGTGGTAGAGGACCTGCCGTGTACATTCAAGGCCCCGATTCGTGTCACTACAAAAAAGAATGGAGGAGAAAAGCAAGACTTTAGAGAAGCTAATACACTGTCCTGGCAAAGGGCTACACCAACACACTTCACTTGGGTGCGTGAAGACATTATTGAATTCACAGCTTTGGGACACTGGCGACCAATAAGACAATGGGAGAGACAGCGGGGCTGGGTACCAGCTGAGAGTTGGGTTCGAGGCAGAGACATGGAGAGTGGAGGTGGAAGTGGCTCTCTGAGGTCGGGTGTCTAGGATGCTGTAGACAAGCGTTGAGCCTTTGGGTCCCTCTGCTCGGTCCCTGCAG
Seq C2 exon
CTCTGTAGTGATGCTGGAGATTGACAACCGGCTCTGTCTGAAGTCAGCGGAGAACGACCACTGCTTCCCTGACGCCCAGAGTGCTGCCGACTACCTGGGAGCCTTGTCGGCAGTGGAGCGGCTTGATTTCCCATACCCACTACGGGATGTGCGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000004346:ENSRNOT00000037456:25
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.036 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0006612=Notch=PD(84.6=29.5),PF068168=NOD=WD(100=50.9),PF076847=NODP=PU(4.6=2.7)
A:
NA
C2:
PF076847=NODP=FE(80.0=100)
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]