RnoALTA0030164-2/3 @ rn6
Alternative 3'ss
Gene
ENSRNOG00000053599 | Pogz
Description
pogo transposable element derived with ZNF domain [Source:RGD Symbol;Acc:1309980]
Coordinates
chr2:196023216-196023795:+
Coord C1 exon
chr2:196023216-196023506
Coord A exon
chr2:196023613-196023722
Coord C2 exon
chr2:196023723-196023795
Length
110 bp
Sequences
Splice sites
5' ss Seq
TAGGTGAGA
5' ss Score
6.95
3' ss Seq
CTTCCCCTCTCCACCTGCAGTGA
3' ss Score
11.11
Exon sequences
Seq C1 exon
CCCCAGGTACACAGTTTGTTAAGCCGACAGTTGGCGTCCCACAAGTGTTCTCTCAGATGACCCCCGTGAGGCCAGGCTCCACAATGCCTGTGAGGCCCACCACCAACACCTTTACCACCGTCATCCCAGCTACTCTCACCATCCGAAGCACTGTCCCACAGTCCCAGTCCCAGCAGACCAAGTCCACCCCCAGTACCTCCACTACTCCCATTGCCACACAGCCAACCGCATTGGGGCAGCTAGCTGGTCAGCCTCCAGGCCAGCCCAACCAGACCTCGAATCCCAAACTAG
Seq A exon
TGAGCATTGCCAGCTTTGTCACTGTGAAGCGACCTGGGGTTACAGGTGAAAATAGCAACGAAGTGGCCAAGTTGGTGAATACTCTTAACACTATCCCTTCCCTGGGCCAG
Seq C2 exon
AGTCCTGGGCCAGTGGTGGTGTCCAACAACAGTTCTGCTCAAAGAACCAGTGGACCCGAATCTTCAATGAAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000053599-12-14,12-13,12-12-2/3
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=0.939 A=NA C2=0.944
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion 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:
CTTTACCACCGTCATCCCAGC
R:
TGAAGATTCGGGTCCACTGGT
Band lengths:
248-358
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]