RnoINT0102309 @ rn6
Intron Retention
Gene
ENSRNOG00000000442 | Notch4
Description
notch 4 [Source:RGD Symbol;Acc:1303282]
Coordinates
chr20:4343460-4346702:+
Coord C1 exon
chr20:4343460-4343644
Coord A exon
chr20:4343645-4346449
Coord C2 exon
chr20:4346450-4346702
Length
2805 bp
Sequences
Splice sites
5' ss Seq
CAGGTACGA
5' ss Score
10.03
3' ss Seq
GGCTCTGGCTGTGTCTCCAGTGT
3' ss Score
6
Exon sequences
Seq C1 exon
GTGTAGAGATCTCCAACCTGTGCCAGAATGGGGGCCTCTGTATTGACACGGGCTCCTCCTATTTCTGTCGCTGCCCTCCTGGATTCGAGGGCAAGTTATGCCAGGATACTGTGAACCCCTGCACGTCCAAGCCTTGCCTTCACGGGGCTACCTGTGTGCCCCAGCCCAACGGCTATGTCTGCCAG
Seq A exon
GTACGAGGTCTAGAGGAGGATAGGGAGGGTGGGTGAGGCTCTAGTTTATCCAGTCCTCGTTCCTTTAAGCCAGGCACCCAACCACCCACCAGGTTTCACTTCCTCTTTCCTCCCCCTGCCCCCACCTTGACACCAACACCAAACTCCTGCCACCTCTGCCTCCACATTTGCTGCCTCAGTCTTCACCCCACCCACTCCCAAGGGAAGCTGGCCATCCCTCTCTGCTTACTTCACCCCTGCAGGATTTCTCTTCCCACCTGTCTCTCAGGCCACAGCAGCTCCCATCCCCCACTGTCCTGCTCCCTGATCCAGTGTCCCAACACGGCTTCTTAGCCTTTGAGCCTCATTTCCTGCCCCTTCCTTTGGGGGGGAGGGTGACCTGAGCTAGGGGAAGGTTTTCTCCTCGATGGCCCAGGTCACTATCCGGAAGAGGAAATGTTGGAATTATAGTAGAACCAGTTTAAATCCTGTGCCCAGAAAGTCAACTTTCTCTCTCTTTTTTTAATTTTGTGTGTATGAGTGTTTTGACCGTACGTGTACCGCATGCATGCCCGGTACCAATGGAGGTCAGAGGGCAGATTCAGACTCCCTGAAGCTGGAGATGCTGAGAGTTGTGAAGTACCCCGTGGGTGCTGGGGACTGAACCCCAGGCCTGTGCAAAAGCAAAAGATGCTCTGTCCTGCTTCTCAGAACACCCTTTCGACTGCCTAGCCTACCACAGACTTAACCTTGTAGTCGCCATCTCCAACAATAATCTATTTAACTTTATTTTAAGGACATTGGTATGTGTGTCTCAGATCCCCTAGAACTGGAGCGACAGACAGTTGTGAGCCGCCATGTGGTTGCTGGGAACTGGACCTACATCCTCTATAAGAACAGCCAACATTCTCTTAACCACTGAGCCATTTCTCCATCCTCCCCCCCACACACACACACACTCACAACTTTTTTATTTATTTTAAATTACACATGTGACTTTCTATGTGTGGGTATGTGTGCATGAGTACTGTGGCCCACAAAAGCCAGAGGCGTCTGATCCCCTTGGATTACACGCCACTATGTACTAACCTATGTGGGTTCTGGGACTGGAACCTAGGCCCTCGGCAAGACCAGCGTCTGCTTTTGCTTGTTGGTGTTTTGAGAGGGGCTTGCCCTGTGAAGGGCTGTCCTGGAACTCACTCTGTAGACCAGGCTGGCCTTGAACTCAGAGATCCACCTGCCTCTGCCTCCTGGGGGCTGGGATTAAAGGCTCGTGCTATCACCACCCAACTTTTGTGTTCTTAACTGCGGAGACATCTCTCTACCTCCCACCCCTACCCACCCTTTTCTTCTTCCTTCCTTCCTCCCCCGCTGCCTTCCTTCCTTCCTTCCTTCTTTTCTGAGGCAATGTCTCATGTAGCCCAGACTGGCCTTGGAAAACCTTTATGTTGCTTCGGATAATCTTGAACTCTCCTGCCTCTGCGTAGCCAGTGAGGGGACTGTAGGTATATACCCCCACACCTATTTTATACAGTTCAGGGGATCGAGCCCAGGACCATGTGTGTGCTAGGCAAACTCTACCCATCACCATCTCAAACCCTTATGAGACTAACCAGACAGAGAGAGCCAGGGTAGGGATGACCCTGTCTCAAGAGTGAAGCGTTCTGGGGTTGGGGATTTAGCTCAGTGGTAGAGCGCTTGCCTAGGAAGCGCAAGGCCCTGGGTTCGGTCCCCAGCTCCGAAAAAAAGAACCAAAAAAAAAAAAAAAAAAAAAAAAAAAGAGTGAAGCGTTCTGAACCTCTGCACTCTCATTTCACCTCACAAAACCCCCTCCTCCGGTGGTTTCCAGAATGCCCTCCACCTGTTCCTACCGCTCTAGGGTCAGGGGGGGTGGCCAGGGGGACTCCCTGAATTCTCTTGACTCCCAAAGCCTCCCTTCCGGCTTGCCATCTGGGAGAAGCATAGCGCTTGTGACTTTGGCCCAGCATGCAAAAAAAAAAAAACACAGTGTGGCTCTGGATAGAGCCGGTCTTGCTTTGACCCAAATGTCACTTCACCTTCTCCGCACACCGTTTCATTGTTGCGGGGTGGGAATTAAGTGAGGTAATATTTCTCTACACGGTTGTTAAGAGGATGGTTTAAGGTTATGCACACAGATTATGCAATCAAGGCCAACCACCTCTCCCCTCAGGCTGACCTGTGCTTCCTAGAAACACAGACGAGCTTTAATCATCCCTTTTATCTGTACTACTTAAACTGCCACCTGGCCAGCTAGGGAGATGGCTTAGCCAAGATCCTAGCCTGAAGATCTGAGATCAGATCACTGGAAACCCAAGTCCAAAGTCAGGCTCAGCAGCTCAGCCAGTAATGCCAGAGACGGCGAGACGGAGGCAGAAATAGGCAGATAGTCTCGTCTGCATGGCAAAGTTCCCAGCCAGGAAGAGGCCCTGCCTCAAACAAAAGGCAGAAGAGCCTGAGGACTAACAGGGAAAATGTCTTCTGATCACTACACACCATGCATATATGTGTGCCTACACACACACACACATGCATGCACACACACGCACGCACAACCTAAGTGGGTAATCAGCGGACACCTACAATTCATTGCATGGAGGGTAAGTTGGTATGGGGAAGAGGTGTCCCTCAAAATGAGGCCACATTATTTGGGACTAAGGATTGTGCTCTGTCACTGCACAATGGTGTGTCAGGTAGTGCCGAGACAGGCTGCAATGGAGGAGGAGCCTCAGCTGCTGAGGCGGGAGGCTGGAGCCTGGCAGAACACCTTGAGCTCTGCTCTTCCTCTGGCTCTGGCTGTGTCTCCAG
Seq C2 exon
TGTGCCCCAGGCTATGAAGGACAGAACTGCTCAAAAGTACACGACGCTTGCCAGTCCGGGCCGTGCCACAACCATGGAACCTGTACCCCCAGGCCTGGAGGCTTCCACTGTGCCTGCCCTCCAGGTTTTGTGGGGCTGCGCTGTGAGGGGGATGTGGACGAGTGTCTCGACCGGCCCTGCCACCCCTCGGGCACTGCGTCCTGCCATTCTTTAGCCAACGCCTTCTATTGCCAGTGTCTGCCTGGGCACACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000000442:ENSRNOT00000000513:18
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=46.8),PF0000822=EGF=PU(67.7=33.9)
A:
NA
C2:
PF0000822=EGF=PD(25.8=9.4),PF0000822=EGF=WD(100=36.5)
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]