BtaALTD0023980-2/2 @ bosTau6
Alternative 5'ss
Gene
ENSBTAG00000021568 | VWCE
Description
von Willebrand factor C and EGF domains [Source:HGNC Symbol;Acc:HGNC:26487]
Coordinates
chr29:40496679-40497825:-
Coord C1 exon
chr29:40497713-40497825
Coord A exon
chr29:40497709-40497712
Coord C2 exon
chr29:40496679-40496807
Length
4 bp
Sequences
Splice sites
5' ss Seq
TAGGTAAGG
5' ss Score
9.31
3' ss Seq
GTAGCGAGGCTCTCCCGCAGATG
3' ss Score
2.36
Exon sequences
Seq C1 exon
ACACTGATGAATGCCTTGGGACCCCCTGCCAGCAGAGATGTAAAAACAGCATTGGCAGCTACAGGTGTTCCTGTAGAACTGGCTTCCATCTCCATGGAAACCGGCACTCCTGT
Seq A exon
GTAG
Seq C2 exon
ATGTAAATGAGTGTCGGAGGCCCCTGGAGAGAAGAGTCTGTCACCATTCCTGCCACAACACCGTGGGCAGCTTCCTGTGCACCTGCCGACCTGGCTTCCGGCTCCGGGCTGACCGAGTGTCCTGTGAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000021568-9-9,10-9-2/2
Average complexity
Alt5
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:
PF0764510=EGF_CA=WD(100=95.0),PF0764510=EGF_CA=PU(0.1=0.0)
A:
NA
C2:
PF0764510=EGF_CA=WD(100=95.5)
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Human
(hg38)
No conservation detected
Mouse
(mm10)
No conservation detected
Rat
(rn6)
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:
AACAGCATTGGCAGCTACAGG
R:
GGGCCTCCGACACTCATTTAC
Band lengths:
92-96
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development