BtaALTA0029238-2/2 @ bosTau6
Alternative 3'ss
Gene
ENSBTAG00000020243 | SVEP1
Description
sushi, von Willebrand factor type A, EGF and pentraxin domain containing 1 [Source:HGNC Symbol;Acc:HGNC:15985]
Coordinates
chr8:101654661-101657556:-
Coord C1 exon
chr8:101657399-101657556
Coord A exon
chr8:101654858-101654862
Coord C2 exon
chr8:101654661-101654857
Length
5 bp
Sequences
Splice sites
5' ss Seq
CAGGTATAT
5' ss Score
7.88
3' ss Seq
TCTTTTCTTATTTGTTGCAGAAC
3' ss Score
9.78
Exon sequences
Seq C1 exon
GTGCCAGTGTGCAGCAGGCTTCACGGGGACACACTGTGAGCTGAACATCGACGAATGTCAGTCTAACCCCTGTAAAAATCAGGCCACCTGTGTGGATGAATTAAACGCATACAGCTGTAAATGTCAGCCAGGATTTTCAGGCAGCAGGTGTGAAACAG
Seq A exon
AACAG
Seq C2 exon
TCAGCAGGCTTTAACCTGGATTTTGAAGTTTCTGGCATTTATGGTTACATCATGCTGGATGGTGTCCTTCCGACCCTCCATGCTGTGACCTGCACGTTCTGGATGAAATCGTCTGACGACATTAATTACGGGACACCGATCTCCTATGCCCTGGAGAATGGCAGTGACAATACCTTCCTCCTAACCGATTATAATGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000020243-27-32,27-31-2/2
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=PD(35.5=20.4),PF0000822=EGF=WD(100=57.4)
A:
NA
C2:
PF0035412=Pentaxin=PU(29.9=85.3)
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
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:
AGGATTTTCAGGCAGCAGGTG
R:
ACACCATCCAGCATGATGTAACC
Band lengths:
94-99
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development