GgaINT0038696 @ galGal3
Intron Retention
Gene
ENSGALG00000002922 | NOTCH2
Description
NA
Coordinates
chr8:4238745-4239132:+
Coord C1 exon
chr8:4238745-4238869
Coord A exon
chr8:4238870-4238979
Coord C2 exon
chr8:4238980-4239132
Length
110 bp
Sequences
Splice sites
5' ss Seq
AAGGTAACG
5' ss Score
10.19
3' ss Seq
CTGCACTCTGTGTTTTTCAGGGG
3' ss Score
9.68
Exon sequences
Seq C1 exon
TCCAGGTGTGAACTGCCAGGTAGTGGTTGCACCATGTTCCCCCGACCCTTGTGAGAACTCGGGAATTTGCCAAGAGTCTCCTGATTCCGAAGGCTACACCTGCCAGTGTGCCCCTGGCTGGGAAG
Seq A exon
GTAACGTGGCTGGGAACATCCAGGGCTTCCAGCACTCAGCAGTGTTGGCATCGAGCCTTTTGACCATCGACATAATGAGAGATCTTACTTCTGCACTCTGTGTTTTTCAG
Seq C2 exon
GGGAGAGGTGTACAGTGGATATTGATGAATGTCTCTCAAAGCCCTGCAAAAATCATGCTTTGTGCCATAATATTCAAGGCAGTTACCTGTGTGAATGTCGTCCAGGCTTCACTGGAGGAGACTGTGACAGTAACATTGATGACTGCCTGTCTA
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000002922:ENSGALT00000039988:16
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=PU(90.9=69.8)
A:
NA
C2:
PF0000822=EGF=PD(6.1=3.8),PF0764510=EGF_CA=WD(100=75.0),PF0000822=EGF=PU(9.7=5.8)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AGGTGTGAACTGCCAGGTAGT
R:
AGTCTCCTCCAGTGAAGCCTG
Band lengths:
245-355
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]