BtaALTA0028152-1/2 @ bosTau6
Alternative 3'ss
Gene
ENSBTAG00000014132 | SNED1
Description
sushi, nidogen and EGF-like domains 1 [Source:HGNC Symbol;Acc:HGNC:24696]
Coordinates
chr3:120785461-120786000:+
Coord C1 exon
chr3:120785461-120785574
Coord A exon
NA
Coord C2 exon
chr3:120785887-120786000
Length
0 bp
Sequences
Splice sites
5' ss Seq
CAGGTAGGG
5' ss Score
9.46
3' ss Seq
ACTCTCTGGGTGTTCTCCAGAGG
3' ss Score
7.36
Exon sequences
Seq C1 exon
AGACAGACAAATGCCAGGCACAGCCCTGCAGAAACGGAGGCACCTGCAGGGACCTCCCGGGGGCCTCTGTCTGCCAGTGCCCCCCCGGTTTCACTGGAGTCCACTGCGAGACAG
Seq A exon
NA
Seq C2 exon
AGGTGGATGCCTGCGACTCCAGCCCCTGCCAGCACGGAGGCCGCTGTGAGAACGGTGGCGGGGCCTACCTGTGCGTCTGCCCAGAGGGCTTCTTCGGCTACCACTGTGAGACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000014132-20-25,20-24-1/2
Average complexity
Alt3
Mappability confidence:
NA
Protein Impact
Protein isoform when splice site is used (Ref)
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0000822=EGF=WD(100=79.5)
A:
NA
C2:
PF0000822=EGF=WD(100=79.5)
Main Skipping Isoform:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CGGTTTCACTGGAGTCCACTG
R:
TGTCTCACAGTGGTAGCCGAA
Band lengths:
142-185
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development