RnoINT0102249 @ rn6
Intron Retention
Gene
ENSRNOG00000018835 | Notch2
Description
notch 2 [Source:RGD Symbol;Acc:3188]
Coordinates
chr2:200297181-200302998:+
Coord C1 exon
chr2:200297181-200297313
Coord A exon
chr2:200297314-200302761
Coord C2 exon
chr2:200302762-200302998
Length
5448 bp
Sequences
Splice sites
5' ss Seq
GGGGTATGC
5' ss Score
6.16
3' ss Seq
GACTTTCTTCTCTCCCATAGGCC
3' ss Score
12.23
Exon sequences
Seq C1 exon
TGTGTTCCAGGGTATCAGGGTGTCAACTGTGAGTATGAAGTGGACGAGTGCCAGAACCAGCCCTGTCAGAACGGAGGCACCTGCATCGACCTCGTGAACCATTTCAAGTGCTCGTGCCCACCAGGCACCCGGG
Seq A exon
GTATGCAGTCTGCTTCTCTCTCCCACCCAGGCCGCTCCCTCAGTTTCTCATCTGTTCTTAGTGCTGAAGCAATTTCCAAAAACTGAGACAATTTAGTGAAGACCAGCTTCATTGTAGCCACCTACCTCTTCACCCCCCACCTCCACCCCTAGTCTCCCGCCAGCTTCAGTTCAGGTTTGGTTGTTTCTTAGCTTATGTTCCAGGAAACAGAATGCAGGATGGACATAACCCCGACTAACAGGGTTTTTGGTGCTTCAAGTGAAAATGAACCAACAGCCTTAAAGAGCAAATTCGCATAGGCCTGCTTTTTAATTGTTTAAGTGAGCCAAGTCTTGTGTCCATAGAGCAAGGGAATCAATGGGATGTGTTTGGCTGCCGTCCCAGGAGGCTGCAGACAGAAGGCTGCACTCCTGCACCTGCACCCCTAGATTGTGGACAGCAGACCCATTAGTGTGCTCTGGGAATCGACAGTTGCTCCGACGTCCTGGAGAGAGCATGGCTTGTTAGGGACCTCTGGATCTGAAGGTTCTGTGTAGCCTGTGAGCAGGATGGCAAAGATAGCAGCAGTCATACATTTAGGCAGCAGTCCGTCAGAAGAGACCCTCAGAGAACGCTCTGTTCTCAGCCTTCCACGCCAGTGCATTTGGGTAACTTTTCTTCCTCGAGATAAAATTTGACTAAATTAAGACAGAAGAATACTCCATTAATAGTGCAGAATGAGTCTTGGGGAAGANNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNATCCATCCATCCACCCACCCACCCACCCACCCACCCATCTTTTGTGACAGGGCATTTTTGAGTAGTAGAGCTAAATTCATAAGGTAAGAACCAAATTGACTCTCTGTCTTCTCCTTTGGGAGGTTTATATCCATATCCTCCTCCCCACCATCTGTTCTCTTCTCTCCCCAGCTCCATCTCTGTCTCCCTCTCTCTTCTACTCTCTCCCTCTTCCCCTTTCCTTCATTCCTCATTCTTCTTCCTCTTCCCCTCTCCCTTTCTGCATCTCCCTCCCCTTCCTCTCCCTCCCTATCCCCACCTTCCTCTTTCCTTCTCCATCTGTTCCCATCCCTCTTCCCTTCTCTCCCCAGCCCATCTCTCTTTCCCCATCCCCTCTTCACATCTCTCCCTCTCCCCCATCTCTCCCTCCCTCTCTCCTTCTGTCCCCAGAATCCCAAGTCTCCTCAGCCTCAGATTCACTACAGGCATGTACTTCCGTGCCTGGGTAGTGAGGCCTTTAAACAGTGGTGTTGGTCAGGCGGCGACGACCCCGGTGGTAGCTAATGATATATCAATAATAATAATCACGTCTGGACGGCACAGCAGTGGTCTGTGGCTTTGTTTGCTGCTCTGGCGCTGACTCGCACAGGTGTTGGTTTGCTGCTTTTCTCTGTGCTTTTGGTCCGTAGCCTCCAGGGCCATCACAGGAAAGATGGAGAAAATGTACAGGGCTGTGCAGAGGCTTTCCCTCAGTGTGGAGGTGACGCATGTCACATCCCTAAAGGTGTGTGTCAGAGCCACTCACTAGTGTTCTTCCATAACCCGTGGAGGCCAAGAGCCTAGGAGACGGCATGGGTTTTGTACTGTACCACAGACGCATGCGGTCCCAGAGCGGAATGTCTCCTAAAACACTGAGGTTTTTGTCTTTTCTAAATCAATCAATCGGTCAGTCAATCTCTTTCTCTCTCCCCGATCCTTCTCCTCTTCTTCCTCCTCTTCCTCCTCCTTCTTTTCTTTGTTTGGTGATGGTGGTTGTTGTTGTTTTGAGACAGAATTTCTCTCTGTATCCCTGGCTGTTCTGGAACTCATTCTGTAGACAGGCTGGCCTCAAACTCAGGAATCTACCTGCTTCTGCCTCCAAAGTGCTGGGATTAAAGCCACGTGCCACTGCCTGGCCCCTAAATACTTGTTGGTGGCAGCTTAGAATGATAATGTAGTATATCTGTCTACCTGATGACTGTGTCTGAGCCAGCTCTTCAGATGTGTCTTCTCACTGACATTACACTGTGGTCTTCACTGAGGACTTCGCAGTTGGTCTTACTAATGGCCTCTCACGATACCTGGCTCTCCTTCACAGTTTCCGAGATGGCCTTTAATGGTCTGTTATAGACTGTGCTTCTCTTCCAGTCGTCCTACCTGAATGCTTGTTGGATTATACCTGTGTGCGTGATATTTCCAGGTACCTGAAACAGCGTATATTTGTTCTGACTTTTCCTCTCTGGCTACCCAGCCTGTCCATCTGTGACTGTCCCCAGAGACTCTGGAGCTCTCTCACAGCACAGTGAGAGCCATTCCAGTGCTTGTTGTCAGCACTATATTCCCAGGTGCTGCCTGCTGACACCTCCTGCTCGCCAGACGATAGGTCCCTGGAGCACTTCTGTCATCCTGCTGTTGTGTCAGGCTAAAAGAATGATGTGTGCCACTGATAGCTCGGTCCACTCGGAAGCTTTCTGTTTATTTTACTCATGACGCCAAATATCAAGTATCCTACGCGACTGGGAACACGGACTGGCTTTGTCTGCTTCCACCTCCTGGTTCCCAGTTTAATCTGTCAATAGTTAAGGTGATACGTGCATGTGGACAGGGATAAGTATGTCCACATGCACAGAAAGACATGCATAGAGATGCACTCCCAGTGAACGTGTGCACCCCAACAGTGCACTCCTCCTCTTCACGCACACTGCACACAGTCTCTTGTGTGTCTTTGGAGGATTGAAAAGGCTGTCTTTCAAAACTGCATTATGTGTGTAAGAGCCAAATACAAAGATAGTTTTTATTCCTTCCACTTTTAACTCTGAAGATGGATCAAAGGTGCTGTTTTTCTCTTGACCTTTTTACTTAATTGGAATGTTTTCATATCAAAATAGGGAACTTCTTCAGTATTTTCTCAAAGCTTCAGAATTCCCCTTTATGACAACATTATGTATTGTGCTTAGCTGGTCCTGTAGTGATAGACATTGGGTTTTTAAAGCACACATAGTGCATGTTATAGAATGCGTTTGCAGAAAGTCTGCCAGGCTGTCACACCGAGCTGTCACTTGAGTGACAGGACTGGCTGCGTTCCCTCAGGGGCCACCTTCCTCTCTGTGCAATTCGGCATCTAGCACATTTACAAGTTACTGTTTCCCTCTGAGATGTATCCCTCCTTCTTTCCCTGTTACACTGTCTATCCTTGCTGTGTGCAGAAGTCATTTGTCTTTGCTGCATGATGCGGGTATTTTCCCCATGTACACTGGTTGTAACCTTTCAGATGTCTTATTCTGAGGTCGGAATCTTTCGTTGATTTTTTTTTCATGCAGAATATTTCTAATCATGTTGAATTTATCCCTCCTTTTTATGGCTGCTTGCATCTGAGTGGTAGTCGGCTTTATCTAGACTCTGAAGTTGCCATGGAACTGGATGGTTGATGTTTTCTACCGTGACTTGAGATGGAACTTCCATCTCTTTCTAAGCTCCAGTGCACAGTTAGGTGCTGGTAGGAGCACCCTCGTTGTTGCTGTTGTCCTGTCCGGTCAATTCACGAGAAACTTTCAACCATGAAGGTCTCTTCTTTGTGCTCTCCTGGCTGTGATTTGGTTTTTCCAAACCATTTTTGAGTCAGTTTGCCATTAAAAAATACTGCTGATATCTTTTTGAGATCACATTACATTTATATATACTATAGTGAATATGCCTTTACCATGAAGAGTTGCGTAATCAGATACCGTTTGTTTCCATCTGTCCACGTCTCTGTCTGTCCTTCAGAGCACTTCCTGTGAGGCTGCACATGTGCTTCTGATGTGCTCGGTCATTTGCCTTCTGAAACTGCTAGTGATAGCGAGGAGCTTCTGTGTCTCCTTCCCTTTTATGTCGTCTCTCTCAAAGCATGCCAGCGGGTAAATGGTGAGGACACACAAGTGTTTTGTTTTTAACCTTTTCAAGTTATTTTCATGGCATAGTCATTGGTTTTATTGTTTCTAACCATGCTCACAGTTACCTTAACTAGATGGCTTCAATCTCCAATGTGTCCTTTAGCTGGAATAATCTTCAGATTCATAGCAGGATATTTCTTTCCACTCTGTTGTTGATGTTTTAAATAAAAAGAAATTAGTGTGCACCTATACTCTTTTAAAGGGAAAAAAGTCATTGTTTATAAAACATAAAATACTGTTGCCCAAAATCTAACCCCAACATAGTCTATGTAGTAACTAGGGAGTGTTCTTTTTTGAACTGTGTTCATATTTTGGTTGGAGTTGATAAATGGTGGAAAACTCACAGTGTCTCCTAAGCTTTGGCCCCCGTGCCCTTGAGATGGGACAGTTGTCCCTGCTGCTCTGGGTGGAATGAAGAACGAGTGGAGCCTCAGGTGTAACTTCCTCTTACGCTGCTCCTCAGAAAGCTGCTCGGACTGCATGCAGCTGGCATAGACTAAGCGCCTTTAGCCCAATTATAAAGGTCCCACTGTAGATTGAGGAATATAATCTAGAGAATCGTTAAAGACCACAAGGGCATTTATCTCTTGCTAGTGGTGGGTTCAGTAGATTTTTGTAATTCTGTGACTTTCTTCTCTCCCATAG
Seq C2 exon
GCCTGCTTTGTGAAGAGAACATTGATGACTGTGCTGGGGGCCCCCACTGCCTTAATGGTGGCCAGTGTGTGGACCGGATTGGAGGCTACAGTTGTCGCTGTTTGCCTGGCTTTGCTGGGGAGCGGTGTGAGGGGGACATCAATGAATGCCTGTCCAATCCTTGCAGCTCAGAGGGCAGCCTGGACTGCATTCAGCTCAAAAATAACTACCAGTGTGTCTGCCGCAGCGCCTTCACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000018835:ENSRNOT00000025718:22
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=PD(25.8=17.8),PF0000822=EGF=PU(90.3=62.2)
A:
NA
C2:
PF0000822=EGF=PD(6.5=2.5),PF0000822=EGF=WD(100=48.8)
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]