BtaALTA0022807-2/2 @ bosTau6
Alternative 3'ss
Gene
ENSBTAG00000021289 | POGZ
Description
pogo transposable element with ZNF domain [Source:HGNC Symbol;Acc:HGNC:18801]
Coordinates
chr3:19391859-19392448:+
Coord C1 exon
chr3:19391859-19392149
Coord A exon
chr3:19392230-19392256
Coord C2 exon
chr3:19392257-19392448
Length
27 bp
Sequences
Splice sites
5' ss Seq
TAGGTAAGG
5' ss Score
9.31
3' ss Seq
TTATCACTTGGTCAAAAAAGCTC
3' ss Score
0.16
Exon sequences
Seq C1 exon
CCCCAGGTACCCAGTTTGTTAAGCCGACAGTTGGCGTCCCACAAGTGTTCTCTCAGATGACCCCTGTGAGGCCAGGCTCCACGATGCCTGTGCGGCCCACCACCAACACCTTCACCACCGTCATCCCAGCCACTCTCACCATTCGAAGCACCGTCCCACAGTCCCAGTCCCAGTCGACCAAGTCCACTCCCAGCACTTCCACCACACCCACTGCCACACAGCCGACCTCACTGGGGCACCTTGCTGTCCAGCCCCCAGGCCAATCCAGCCAGACTCAGAACCCCAAACTAG
Seq A exon
CTCCCTCCTTCCCCTCTCCACCTGCAG
Seq C2 exon
TGAGCATTGCCAGCTTTGTCACTGTGAAGCGACCTGGTGTTACAGGTGAAAATAGCAATGAAGTGGCCAAACTGGTGAATACCCTTAACACCATCCCTTCCCTGGGCCAGAGTCCTGGGCCAGTGGTGGTATCCAACAACAGCTCCGCACATGGCTCTCAAAGAACCAGCGGGCCTGAGTCTTCAATGAAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000021289-10-8,10-7-2/2
Average complexity
Alt3
Mappability confidence:
NA
Protein Impact
Protein isoform when splice site is used (No Ref, Alt. Stop)
No structure available
Features
Disorder rate (Iupred):
C1=0.878 A=NA C2=0.932
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
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:
GCCAGACTCAGAACCCCAAAC
R:
GGGAAGGGATGGTGTTAAGGG
Band lengths:
126-153
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development