GgaALTA0001097-1/2 @ galGal4
Alternative 3'ss
Gene
ENSGALG00000002375 | NOTCH1
Description
notch 1 [Source:HGNC Symbol;Acc:HGNC:7881]
Coordinates
chr17:7833212-7833914:+
Coord C1 exon
chr17:7833212-7833344
Coord A exon
NA
Coord C2 exon
chr17:7833795-7833914
Length
0 bp
Sequences
Splice sites
5' ss Seq
AAGGTAAAT
5' ss Score
8.88
3' ss Seq
CTGCCCCCCTGGCTTTGTAGGGG
3' ss Score
8.99
Exon sequences
Seq C1 exon
TGCGTGGCTGGTTATCATGGAGTTAACTGCTCAGAGGAGATCAATGAGTGCTTGTCCCACCCATGCCAGAATGGAGGAACCTGCATCGATCTCATCAATACCTACAAATGCTCCTGCCCCAGAGGAACTCAAG
Seq A exon
NA
Seq C2 exon
GGGAGCGCTGCGAGGGAGACGTCAACGAGTGCCTCTCCAACCCCTGCGACGCGCGCGGCACCCAGAACTGCGTGCAGCGGGTCAATGACTACAAATGCGAGTGCCGGCCTGGCTACGCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000002375-24-26,24-25-1/2
Average complexity
Alt3
Mappability confidence:
NA
Protein Impact
Protein isoform when splice site is used (No Ref)
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=2.3),PF0000822=EGF=WD(100=44.8),PF0000822=EGF=PU(90.9=34.5)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Mouse
(mm9)
No conservation detected
Rat
(rn6)
No conservation detected
Cow
(bosTau6)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GCGTGGCTGGTTATCATGGAG
R:
AGGCCGGCACTCGCATTT
Band lengths:
242-380
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]