BtaALTA0022808-1/5 @ bosTau6
Alternative 3'ss
Gene
ENSBTAG00000021289 | POGZ
Description
pogo transposable element with ZNF domain [Source:HGNC Symbol;Acc:HGNC:18801]
Coordinates
chr3:19402147-19405277:+
Coord C1 exon
chr3:19402147-19402293
Coord A exon
NA
Coord C2 exon
chr3:19405146-19405277
Length
0 bp
Sequences
Splice sites
5' ss Seq
CAGGTACCA
5' ss Score
7.88
3' ss Seq
CTTTTTTTCCCCTTCAGAAGAGG
3' ss Score
1.36
Exon sequences
Seq C1 exon
GTGTGTCAGTACCGCTCCTCACTCTACTCTGAGGTAGACGTCCACTTCCGGATGATCCATGAGGATACTCGGCACCTGCTCTGCCCTTATTGCTTGAAGGTCTTCAAAAATGGCAGTGCGTTCCAACAGCATTACATGAGGCACCAG
Seq A exon
NA
Seq C2 exon
AGGAATGTTTATCACTGCAACAAATGCCGGCTGCAGTTTCTCTTTGCCAAGGACAAAATTGAACACAAGCTGCAGCACCATAAAACCTTCCGTAAACCCAAGCAGCTGGAAGGTTTGAAACCAGGCACCAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000021289-17-19,17-18,17-17,17-16,17-15-1/5
Average complexity
Alt3
Mappability confidence:
NA
Protein Impact
Protein isoform when splice site is used (No Ref)
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.289
Domain overlap (PFAM):
C1:
PF138941=zf-C2H2_4=WD(100=49.0)
A:
NA
C2:
NO
Main Inclusion 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:
CAAAAATGGCAGTGCGTTCCA
R:
TGGCAAAGAGAAACTGCAGCC
Band lengths:
92-95
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development