RnoINT0102284 @ rn6
Intron Retention
Gene
ENSRNOG00000004346 | Notch3
Description
notch 3 [Source:RGD Symbol;Acc:620761]
Coordinates
chr7:14162194-14165917:-
Coord C1 exon
chr7:14165352-14165917
Coord A exon
chr7:14162527-14165351
Coord C2 exon
chr7:14162194-14162526
Length
2825 bp
Sequences
Splice sites
5' ss Seq
CAAGTGAGG
5' ss Score
5.85
3' ss Seq
CTGTGTTCTCTGCCCCCCAGCCC
3' ss Score
9.15
Exon sequences
Seq C1 exon
CCATTCTGGGGTCTGCGTTGCGAGCGGGTGGCACGCTCCTGCCGGGAGCTGCAGTGCCCAGTGGGTATCCCATGCCAGCAGACAGCCCGTGGGCCGCGCTGTGCTTGTCCTCCCGGGCTGTCTGGGCCCTCCTGCCGGGTTTCTAGGGCGTCACCCTCTGGAGCTACTAACACCAGCTGCGCTGCTACTCCTTGTCTGCATGGGGGCTCCTGCCTACCTGTACAGAGTGTCCCTTTCTTCCGCTGTGTATGCGCTCCGGGCTGGGGTGGCCCGCGTTGCGAGACCCCTTCCGCAGCCCCTGAGGTCCCTGAGGAGCCACGGTGCCCGCGAGCCGCCTGTCAGGCCAAGCGAGGGGACCAGAACTGCGACCGTGAGTGCAACAGCCCAGGCTGTGGCTGGGACGGCGGTGACTGCTCGCTGAATGTGGACGACCCCTGGAGGCAGTGTGAGGCACTGCAGTGCTGGCGTCTCTTCAACAACAGCCGGTGCGATCCAGCCTGCAGCTCTCCTGCCTGCCTCTATGACAACTTTGACTGCTACTCTGGTGGCCGCGACCGCACCTGCAA
Seq A exon
GTGAGGCCCCCCCCCCGCCCCCAAGACTTCTTATGTCCATCTGTCAGGGAGCCACATCTGTCAGTCTGCCTGTCAGTCCGTTTTTGGATCATCGATGGCCTGTCCCTTCATTTTTCACCAAGGCACTGGTGGTTTTCTCCCCGGTTTCCACCTCTGTGTCTTGCTCATCTCTGCCCATTTATATTTTCACCAACATATCTTGCCCCTTTGTTTCTGTCTGCCTGCGGTTACACATTCCACCTGTCCATACTTATGGCTTGTTACTCTTTCTTTCTTTTTTTTAATTGGATTTTTTTAAAATTTACATTTCAGATGCTATTCCCTTTCCTGGTTTCCCAGACATAAGCCCCCATCCCCTCCCCCTTCCCTTCTTTTATAAGGGCGTTCCCCTCCCCATCCCTCCTCCCCTCATTCCCCTACTCTGGGGGTCCAGCCTTGGCAGGACCAAGGGCTTCTCCTTCCATTGGTGCCCAGCAAGGCCATCCTCTGTTACATATGCAGTTGGAGCCATGTGTACTCTTTGGGTAGTGGTTTAGTCCCTAGGAGCTCTGGTTGGTTGGCATTGTTGTTCTTATGGGGTTGCAACCCCTTCAACTCCTTCAATCCTTTCTCTAATTCCTCCAACGGGGGTCCCGTTCTCAGTTCAGTGGTTTGCTGCTATACTCTGTCTTTCTTAAAATTTTAAAAATCAAGCTGGGTCTAATTGCTCACACATTTAATCCCAGTACTTGGGAGGTAGAGACAAGCAGGTCTCTGTATGAATTCAAGGCCAGCATGGTCTACATAGTGAGTTCCAGGCCAGCGGAGGCCACACAGTGAGACCCTGCTTCAAAACAAACAAACAAACAAAACCCCAAACACTATCCTTAATTATTAGTGTGCATGCATGTGGAGGTCAGAGAGCCACCCTGTGGGAGCCTGCTCTCTCCTTTCTTCGGTGGGACCTGGGGCTGTCTGTATGCCCAGCTGTCTGTCCTTCTTCTTATCCACCTGTATGTCTAATTGCTTTTTCTGTGTGTGCCATCTATCTGCCCGTCTTTGTGTCACTTGCTTGTTCATGTCCTTCTTCTGGCCATCCTCAGTCCCATGGATTCTCTGCTTCTGTCTGTCTGTCTTTCTGTCTGTCTGTCTGTCTGTCCTATCTCCTGCCTCATCCCTCACCGGCCCATACATTCTATATTTCCGCATCCTCTTGTGTGTCCCTGTGTTTGTCTGGAATCCTCTCCTACCATTGTCTCCTTATTAGTCTTTCATTTCATCCTTCCCCTTCCTCATAGTTCTCCAGTCACCTGACCTCTGTTTCCCTCAGATGCCTCAGACCTACTGTTACCTGGGATTGCTCCGCTCACTGCACTCACTGAATTGTTCCTTCCCTAAGAAGTTCCTCCCACTTCCTCCAGGCCTTTGCGTGTTATCAGCATTTCGAACTACTCCTGGGTGACCCCCAGCACTTCCCTGCTTTCTAGTAATTAATTCCAAACAGAACCCATGTGTACGCTTCCGTTTACCATTGATTGTCCTGTAAGTGAGATCCTGTGTGCTTTCCTCATTTGTCTCCTGGGACATCTCTCTCCACCCACAAGGGTTCCAGTTCTTCTGGGGCAAGGATTGGTGGACGGGATCTTGGTACACAGCAGGAGCTCAGTTAACACCTGTTACACTGATACCGTTACACTGATACCGGTTGAGCATCCCCAATCCCAAACCAGAGCCCCTGAATTACGTGGCACATGAGCGTGATACCTCGGTGGAAAATCCCATCCTTTGCCTCGTTGATAAGTTGCAGTCCAAATCCAGACACGGGTTGGGATGTGGTTCAGTGGCAGAGCACCTGCATAGACGAGAGGCCCTGAGTTCGATCCCCGGCATGGAAATAAAACAACCCCCAAAGTCAGGCACACTAAAAATACATAGTTACTTTTGGGTATGTGTATTTTTGTCTTTAGACTTGGGCCCCATCCCTGAGGTGCCTTATATAAATTACGTATAGAGGGTTGGGGGAATGTAGCTCAACTGACAGAATGCTTGCCTAACATCCACAAAGCCCTGGCTCTGGTCCCAAGCATCGCCTAAACTGTGAGAGGTGGTGCAGACTTGTAATCCCGGCTCTCATCAGGTGGAGCAGGAGGATAAGTTCAAGATCACACTCAGCTACATAGTTTTGTTTTATTGGTTTTGCTATGTAGCCCTGGCTGGCCTAGAATTGGCTATTCAGACCAGGCTGGCCCTGAGTTCACAGAGACATCCTTGCCTCTGCCTCTGGAGTACTGAGATTAGAGGTATATTTGGCTAACATAGGGAGTTTGAGGCCAACCTGGGACACATGAGATCTTCTCTTAAAATATTTATATGAAGAGATCTCATTGCATTTACTTGCATATATATTTAAGCATATATGCAAATATTCTAAAACTCTAATTTGAACTCCAAAATAGTTTTTTTTAAAGATTTATTCATTTATTATATATAAGTACACTGTAGCTGTCTTCAGACACACTAGAAGAGGGCATTGGATCTCTTTACAGATGGTTGTGAGCCACCATGTGGTTGCGGGAATTGAACTCAGGACCTCTGGAAGAGTAGTGGGGTGCTCTTAACCACTGAACCATCTCTCCCGCCCTCTGAAATAGTTTTAGTCCCAAGTATTTCGGATTAGGAACACAGAACTGTGGCTATGCTACTGCTACTGCGTTTGCAGAAAGCCTGACATATGCAAGGACACCCCCCCACCCCACCCCATGCAAGCACTGTCCAGTACTGCCCTTCTCTGTGTGTGCATTTAGACGACCAGAGGAATCTCTAACCCTGTGTTCTCTGCCCCCCAG
Seq C2 exon
CCCGGTTTATAAGAAGTACTGCGCCGACCACTTTGCAGATGGCCGTTGTGACCAGGGCTGTAACACCGAGGAGTGTGGCTGGGATGGGCTGGACTGTGCCAGTGAGGTCCCGGCCCTTTTGGCCCGGGGGGTTCTGGTCCTCACAGTTCTTCTGCCTCCTGAAGAGTTGCTTCGCTCTAGTGCCGACTTCCTGCAGCGACTCAGCGCTATTCTGCGCACCTCGCTGCGCTTCCGCCTGGATGCACGTGGCCAAGCCATGGTCTTTCCCTACCACCGGCCAAGTCCTGGCTCCGAATCCCGGGTTCGTCGTGAGCTTGGCCCAGAGGTGATCGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000004346:ENSRNOT00000037456:24
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=0.036
Domain overlap (PFAM):
C1:
PF0000822=EGF=PD(13.9=2.6),PF0000822=EGF=WD(100=17.5),PF0006612=Notch=WD(100=19.6),PF0006612=Notch=WD(100=19.6),PF0006612=Notch=PU(12.8=2.6)
A:
NA
C2:
PF0006612=Notch=PD(84.6=29.5),PF068168=NOD=WD(100=50.9),PF076847=NODP=PU(4.6=2.7)
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:
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]