BtaALTD0009104-2/2 @ bosTau6
Alternative 5'ss
Gene
ENSBTAG00000011544 | GAPVD1
Description
Bos taurus GTPase activating protein and VPS9 domains 1 (GAPVD1), mRNA. [Source:RefSeq mRNA;Acc:NM_001102520]
Coordinates
chr11:96184161-96184907:+
Coord C1 exon
chr11:96184161-96184252
Coord A exon
chr11:96184253-96184295
Coord C2 exon
chr11:96184788-96184907
Length
43 bp
Sequences
Splice sites
5' ss Seq
CGGGTATGT
5' ss Score
8.79
3' ss Seq
TTTTTTTTTTTTTTCTGAAGGCA
3' ss Score
8.78
Exon sequences
Seq C1 exon
AGGCCCCAGATCTAAAGCAGGAAGAGCGACTGCAGGAACTGGAGAGCTGTTCTGGACTGGGTAGCACATCTGATGATACGGATGTCAGGGAG
Seq A exon
GTCAGTTCCCGCCCCAGCACACCAGGCCTCAGTGTTGTGTCGG
Seq C2 exon
GCATAAGTGCAACCTCTGAGGATATTCCCAATAAGATTGAAGATCTGAGATCTGAGTGCAGCTCTGATTTTGGGGGTAAAGATTCTGTCACTAGTCCAGACATGGATGAAGTCACCCATG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000011544-15-13,16-13-2/2
Average complexity
Alt5
Mappability confidence:
NA
Protein Impact
Protein isoform when splice site is used (Ref)
No structure available
Features
Disorder rate (Iupred):
C1=1.000 A=NA C2=0.976
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GGAACTGGAGAGCTGTTCTGG
R:
CCCCAAAATCAGAGCTGCACT
Band lengths:
133-176
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development