RnoALTA0029449-4/6 @ rn6
Alternative 3'ss
Gene
ENSRNOG00000005504 | Pkp4
Description
plakophilin 4 [Source:RGD Symbol;Acc:1307840]
Coordinates
chr3:45365817-45369017:+
Coord C1 exon
chr3:45365817-45366004
Coord A exon
chr3:45368545-45368655
Coord C2 exon
chr3:45368656-45369017
Length
111 bp
Sequences
Splice sites
5' ss Seq
CAGGTAAGT
5' ss Score
10.86
3' ss Seq
TCTCCTTCTTATGTTACCAGCAC
3' ss Score
6.99
Exon sequences
Seq C1 exon
GATCGTTGGGAAACTCAAGAAGTTCAACACAGATGAATTCTTACTCTGACAGTGGATACCAGGAAGCAGGGAGTTTCCACAACAGCCAGACCGTGAACAAGGCAGACAGTAGACAGCATCCATTCACGGGATCAACAAGCAACCATGTGGTGAGGAATTCGAGAGCAGAAGGACAAACACTGGTTCAG
Seq A exon
CACAGGCGTGTCTCCTTCAAGGGGGTCACTGAGAACTTCTCTGGGTAGTGGATTTGGCTCTCCATCAGTGACGGACTCCCGACCTCTCAACCCCAGTACTTACTCCTCCAG
Seq C2 exon
CACGCTCCCTGCTCAGCGGGCCGCCTCTCCGTACTCACAGAGACCCGCCTCCCCGACAGCCGTGCGCCGGGTCGGGTCCGTCACCTCCCGACAGACCTCCAATCCCAACGGACCAGTCCCTCAGTACCAGACCACCACCAGGGTGGGGTCCCCACTGACCCTGACTGATGCCCAGACTCGAGTAGCTTCCCCATCCCAAGGCCAAGTGGGGTCATCGTCCCCGAAACGCTCTGGGATGACCGCCGTACCACAGCATCTGGGACCTTCACTGCAAAGGACTGTTCATGACATGGACCAATTCGGACAGCAGCAGTATGATATTTACGAGAGGATGGTTCCACCACGGCCAGACAGCCTGACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000005504-29-28,29-27,29-26,29-25,29-24,29-23-4/6
Average complexity
Alt3
Mappability confidence:
NA
Protein Impact
ORF disruption when splice site is used (sequence inclusion)
No structure available
Features
Disorder rate (Iupred):
C1=1.000 A=NA C2=1.000
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Mouse
(mm9)
No conservation detected
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AACAGCCAGACCGTGAACAAG
R:
TGGTGGTGGTCTGGTACTGAG
Band lengths:
248-359
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]