MmuALTA0013683-2/2 @ mm9
Alternative 3'ss
Gene
ENSMUSG00000038902 | Pogz
Description
pogo transposable element with ZNF domain [Source:MGI Symbol;Acc:MGI:2442117]
Coordinates
chr3:94668010-94668472:+
Coord C1 exon
chr3:94668010-94668300
Coord A exon
chr3:94668380-94668406
Coord C2 exon
chr3:94668407-94668472
Length
27 bp
Sequences
Splice sites
5' ss Seq
TAGGTGAGA
5' ss Score
6.95
3' ss Seq
TTTTCACTTGGTCAATGTAGCTC
3' ss Score
4.3
Exon sequences
Seq C1 exon
CCCCAGGTACACAGTTTGTTAAGCCGACAGTTGGCGTCCCACAAGTGTTCTCTCAGATGACCCCCGTGAGGCCAGGCTCCACAATGCCTGTGAGGCCCACCACCAACACCTTTACCACCGTCATCCCAGCTACTCTCACCATCCGAAGCACTGTCCCACAGTCCCAGTCCCAGCAGACCAAGTCCACCCCCAGTACCTCCACTACTCCCACTGCCACACAACCAACCTCACTGGGGCAGCTAGCTGGTCAGCCTCCAGGCCAGTCCAACCAGACCTCGAATCCCAAACTAG
Seq A exon
CTCCCTCCTTCCCCTCTCCACCTGCAG
Seq C2 exon
TGAGCATTGCCAGCTTTGTCACTGTGAAGCGACCTGGGGTTACAGGTGAAAATAGCAACGAAGTGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000038902-10-10,10-9-2/2
Average complexity
Alt3
Mappability confidence:
NA
Protein Impact
Protein isoform when splice site is used (Ref)
No structure available
Features
Disorder rate (Iupred):
C1=0.946 A=NA C2=0.920
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Associated events
Other assemblies
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CTACTCCCACTGCCACACAAC
R:
AGTGACAAAGCTGGCAATGCT
Band lengths:
113-140
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development
- Neural differentiation time course
- Muscular differentiation time course
- Spermatogenesis cell types
- Reprogramming of fibroblasts to iPSCs
- Hematopoietic precursors and cell types
Other AS DBs: