GgaINT0038689 @ galGal4
Intron Retention
Gene
ENSGALG00000002922 | NOTCH2
Description
neurogenic locus notch homolog protein 2 precursor [Source:RefSeq peptide;Acc:NP_001238962]
Coordinates
chr8:4186834-4188231:+
Coord C1 exon
chr8:4186834-4186947
Coord A exon
chr8:4186948-4188117
Coord C2 exon
chr8:4188118-4188231
Length
1170 bp
Sequences
Splice sites
5' ss Seq
CTGGTGAGT
5' ss Score
10.1
3' ss Seq
GCTGTCGTTCTGCCTTTCAGGAT
3' ss Score
10.95
Exon sequences
Seq C1 exon
GTTTTAAAGGTGTTCACTGTGAAGAAGATATTGATGAGTGTCTAAGTAATCCCTGTGTGAACAACGGAGAGTGTCTTGATAAAGTAAACCGGTTCCTCTGTGTCTGTCCTCCTG
Seq A exon
GTGAGTACTTATTTCTGGAAGCTTTTCTTGCTTCACCTTACCAAGAACTCATTAGATAAGCAGTGAAAGGCTGCAGGCATCGTTTCTTGGGAGTTTCTGTAGTCTTGGTGCAGCACCTGTTTGAGTTAGTTGCAGTCATTGGTAAGTTGGAGTATGGGCATGTATTGTTTGGCAGTGTGATCGTGCCTGTAGCTGGGAAGTGTTGAGGAACAGTTGGGTATCTCACCTTAAAGAGTTGAACGCAGCAAGAGCTTACATCATTGTGAATATCACAGTGAGAGGTAATTACTTCTAAATACATTATAAAATCAGAGTGTCTGCATGCTTTTTTTTAATAGGTTTTTAGGTAGAAGCCATATTTCCGTCAGTAGAGCTTATGTTGCTTGCATGAGGAGGGAGGCAGATTGGGTCTCCACTTCATTAGAGTAGAAAGACAAATGCTGAGCTGAAGGATCAGTGTTAGCTATGAAGCAAACATCCCTTATCTTCCTGGTGGCTCGCGAGAAGTTTTGACATTGGAAGATACCAAAAGCCTGCTTTGCATTCCTTCTCATTGAGTAATGATGTTCCAGCTCATATTCCATTCTTCCTCTGGTTCCTTCCTATAAGAAACATTCCTGGAATTTTGGGTTTTTTGTTTCTTTAAGGGCCTAAGAATCTGCATTGTGTGACGTAACCTGTTGATAGTTTGCCTGTTTCAAGAAGTATGTAGAAGGACACAGGGTTGTATTATACCACATTCCCCGCTGCTGTAGTAATTCCAGTCTGAAGGCTCTAATAAAGTGTGCATAAGTGTTTAATTTTAAGTTAATTGTCTTGATTACTGGAAAGTTTTCATTGGTGGCCTCTCAGTTTTGAAGGCAGGCGTGCTGCTGGTTGGTAGCAGCCACTACTTGTGCTCCATTTCCTTTATTTCTGTTGGACTTGGCTGTCTCTGTTTTCAAGCTGAGGCTTCCCTGACCTGGGGAATAGAAACTGTGTTTTGGTTGGTGGGTTGAATGAAGAAACCAGGGTGTGGTTTGTATGTTTTATGGTGCAATTGAGTTCAGATTGGAGCTTACGTTTTGGTGGTTTTAAGGATTTGCTGCTAAATAATTCCTAATAATACAGCTGTTTAGTTTTAAATGCTTCAAATTGCCTCTGACTTTTCGCTGTCGTTCTGCCTTTCAG
Seq C2 exon
GATTCAGTGGTGCAGTGTGTCAGATTGATATAGATGACTGCTCTAGCACACCGTGTCTCAATGGAGCCAAGTGCATCGACCATCCCAATGGCTATGAGTGCCAGTGTGCCACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000002922:ENSGALT00000039988:9
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(16.1=12.8),PF0000822=EGF=PU(80.6=64.1)
A:
NA
C2:
PF0000822=EGF=PD(16.1=12.8),PF0000822=EGF=PU(83.3=64.1)
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:
GTTTTAAAGGTGTTCACTGTGAAGA
R:
CACACTGGCACTCATAGCCAT
Band lengths:
222-1392
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]