BtaALTD0014898-3/3 @ bosTau6
Alternative 5'ss
Gene
ENSBTAG00000007909 | NOTCH2
Description
notch 2 [Source:HGNC Symbol;Acc:HGNC:7882]
Coordinates
chr3:23467725-23469929:+
Coord C1 exon
chr3:23467725-23468226
Coord A exon
chr3:23468227-23468578
Coord C2 exon
chr3:23469582-23469929
Length
352 bp
Sequences
Splice sites
5' ss Seq
AAGGTCTGT
5' ss Score
6.43
3' ss Seq
CTCTGTCTCCCTCTGCCTAGATA
3' ss Score
9.06
Exon sequences
Seq C1 exon
CTTCTCTGGGGCACGATGCCAGAGCAGCTGCGGACAGGTGAAGTGCAGGAGAGGGGAGCAATGTGTGCACACGGCCTCGGGCCCCCGCTGCTTCTGCCCCAACCCCCAGGACTGCGACTCGGGCTGCGCCAGTAGCCCCTGCCAGCACGGGGGGAGCTGCTACCCTCAGCGCCAGCCTCCTTACTACTCGTGCCAGTGTGCCCCGCCGTTCCGGGGCAGCCACTGTGAACTCTACACCGCCCCCACCAGCACCCCTCCCGCCACCTGCCTGAGCCAGTATTGTGCTGACAAAGCTCGGGACGGCATCTGTGATGACGTGTGCAACAGCCATGCCTGCCAGTGGGATGGGGGGGACTGTTCCCTCACCATGGAGGACCCCTGGGCCAATTGCTCCTCCCCGCTGCCCTGCTGGGAGTACATCAACAACCAGTGCGACGAGCTGTGCAACACGGCCGAGTGCCTGTTTGACAACTTTGAATGCCAGAAGAGTAGCAAGACAT
Seq A exon
GCAAGTAAGCGCCCAGGGTCCCCAGAACTGAGGGGCAGCGCTGTCACTAACACACCTCGGTCTCTTGTTCTTTTGCTGCTAACCGCTCCAGTGCTTCGGCCCAAGCCGCCTCTGCCTTCTGGACTGGCACCAGTTGCCCTCTTCTTCCTGGTGCCATCCTGCCCCATCACACACTACCCTGTGCTCTCCCTTGCTGACCGAGGGGCAGAAACGCTCACTGCACAGCCACTCTCTGCCTGTCTCTGCTTCCTCGCCTGCTGCTGCCACAGGTTCCCAGGGGAAGTGACTTTTGGAAGTGTTACCCACTGTCAGGCAGCCTCTCACATAATCTGCCTGCAGCATGGTTGCAAAG
Seq C2 exon
ATATGACAAATACTGTGCAGACCACTACGAAGACAACCATTGTGACCAGGGTTGCAACAGTGAGGAGTGTGGCTGGGATGGGCTGGACTGTGCTGCTGACCGGCCAGAAAACCTGGCAGAGGGCACCCTGGTCATCGTGGTGCTGATGCCACCTGAACAGCTGCTCCAGGATGCCCGCAGATTCTTGCGGGCACTGGGCACCCTGCTCCACACCAACCTCCGCATCAAACGGTCTGCCCAGGGGGAACTCATGGTCTACCCCTATTATGGTGGGAAGTCAGCTGCCATGAAGAAGCAGAGACTGACACGCAGGTCCCTTCCTGGAGATGAAGAACAGGAAGTGGCTGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000007909-35-34,36-34,37-34-3/3
Average complexity
Alt5
Mappability confidence:
NA
Protein Impact
ORF disruption when splice site is used (sequence inclusion)
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.085
Domain overlap (PFAM):
C1:
PF0000822=EGF=PD(14.7=3.0),PF0006612=Notch=WD(100=21.9),PF0006612=Notch=WD(100=21.9),PF0006612=Notch=PU(15.8=3.6)
A:
NA
C2:
PF0006612=Notch=PD(81.6=26.5),PF068168=NOD=WD(100=48.7),PF076847=NODP=PU(4.9=2.6)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Human
(hg38)
No conservation detected
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CCGAGTGCCTGTTTGACAACT
R:
GCTTCTTCATGGCAGCTGACT
Band lengths:
344-696
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development