GgaINT0124451 @ galGal4
Intron Retention
Gene
ENSGALG00000002375 | NOTCH1
Description
notch 1 [Source:HGNC Symbol;Acc:HGNC:7881]
Coordinates
chr17:7833657-7834118:+
Coord C1 exon
chr17:7833657-7833914
Coord A exon
chr17:7833915-7834005
Coord C2 exon
chr17:7834006-7834118
Length
91 bp
Sequences
Splice sites
5' ss Seq
CAGGTGAGC
5' ss Score
9.6
3' ss Seq
GCCCTCCTGTCCCTCTGCAGGGC
3' ss Score
12.72
Exon sequences
Seq C1 exon
GGGTGCACTGTGAGATCAATGTGGATGACTGCAGCCCTTTCTTTGATCCCGTCACCCTGGGGCCCAAGTGCTTTAACAATGGCAAGTGCACGGATCGGGTAGGTGGCTACAGCTGCATCTGCCCCCCTGGCTTTGTAGGGGAGCGCTGCGAGGGAGACGTCAACGAGTGCCTCTCCAACCCCTGCGACGCGCGCGGCACCCAGAACTGCGTGCAGCGGGTCAATGACTACAAATGCGAGTGCCGGCCTGGCTACGCAG
Seq A exon
GTGAGCACCGCGTGCCGCCCGCTGCCTGCAGTGCACCCCGAGCACCTCGCACGCCCTGCTTTGCAGCTCACGCCCTCCTGTCCCTCTGCAG
Seq C2 exon
GGCGTCGCTGTGACACCGTGGTGGATGGCTGCAAGGGCAAACCCTGCAGGAATGGGGGAACGTGCGCTGTGGCCAGCAACACCGGCCGCGGCTTCATCTGCAAGTGCCCCCCG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000002375:ENSGALT00000003754:22
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(6.5=2.3),PF0000822=EGF=WD(100=44.8),PF0000822=EGF=PU(90.9=34.5)
A:
NA
C2:
PF0000822=EGF=PD(6.1=5.3),PF0000822=EGF=PU(79.4=71.1)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GTGGCTACAGCTGCATCTGC
R:
CATCCACCACGGTGTCACAG
Band lengths:
183-274
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]