DreEX6042135 @ danRer10
Exon Skipping
Gene
ENSDARG00000076542 | pogzb
Description
pogo transposable element with ZNF domain b [Source:ZFIN;Acc:ZDB-GENE-100609-3]
Coordinates
chr16:38169630-38170229:+
Coord C1 exon
chr16:38169630-38169695
Coord A exon
chr16:38169837-38169946
Coord C2 exon
chr16:38170128-38170229
Length
110 bp
Sequences
Splice sites
3' ss Seq
ACACGTTTACTTTCTTTCAGAAA
3' ss Score
9.37
5' ss Seq
CCGGTGTGT
5' ss Score
6.56
Exon sequences
Seq C1 exon
GATGAAGGGATTTTGTAAACGCCAGTCTTGACGTTAAAACTGGTCGGACCCGATTCCTGTCAGAAG
Seq A exon
AAACATGGATTCGGATTTGTTTATGGAGTGTGAGGAGGAGGAGCTGGAGCCATGGCAACAGCAGTCTATGGATGAACCAGCCGGAAATGCTGAAAGCAGTACTCCCTCCG
Seq C2 exon
CCCCGGTGGTTGATGTTCCAGCTCCGCCTAAGACCATGGTGATCCCAAGCCTAACGTCTGTAGTAAATGCGGCGAACACGGTTCCGCTGATCACAAATACAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000076542-'3-3,'3-1,4-3=AN
Average complexity
A_C3
Mappability confidence:
100%=100=100%
Protein Impact
Alternative protein isoforms (Ref, Alt. ATG (>10 exons))
No structure available
Features
Disorder rate (Iupred):
C1=NA A=0.994 C2=0.340
Domain overlap (PFAM):
C1:
NA
A:
NO
C2:
NO
Main Skipping Isoform:
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:
TGAAGGGATTTTGTAAACGCCA
R:
ATTTGTGATCAGCGGAACCGT
Band lengths:
162-272
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]