BtaALTA0022363-2/3 @ bosTau6
Alternative 3'ss
Gene
ENSBTAG00000013773 | PKP4
Description
Bos taurus plakophilin 4 (PKP4), mRNA. [Source:RefSeq mRNA;Acc:NM_001191491]
Coordinates
chr2:37877153-37880573:-
Coord C1 exon
chr2:37880383-37880573
Coord A exon
chr2:37877624-37877628
Coord C2 exon
chr2:37877153-37877623
Length
5 bp
Sequences
Splice sites
5' ss Seq
CAGGTAAGC
5' ss Score
9.88
3' ss Seq
TCTCCTTCCTATGTTATCAGCAC
3' ss Score
7.09
Exon sequences
Seq C1 exon
GATCTTTGGGTAACTCAAGAAGTTCAACACAAATGAATTCTTATTCCGACAGTGGATACCAGGAAGCAGGGAGTTTCCACAACAGCCAGAACTTGAGTAAAGCAGATAACAGACCACAGCATTCATTCGTAGGATCAACTAATAACCACCTGGTGAGGAATTCAAGAGCTGAAGGGCAAACACTGGTTCAG
Seq A exon
CACAG
Seq C2 exon
GCGTGTCTCCTTCAAGGGGGTCACTGAGAACTTCTCTGGGTAGTGGATTTGGCTCTCCCTCTGTAACCGACTCCCGACCACTGAACCCCAGTGCATACTCCTCCACCACATTACCTGCTCAGCGGGCAGCTTCTCCATACTCTGCACAGAGACCCGCCTCCCCATCAGCTGTACGTCGGATTGGGTCGGTCACCTCCCGGCAGACCTCCAATCCCAACGGACCAACCCCTCAGTACCAGACCACCACCAGAGTGGGGTCCCCACTGACGCTGACGGATGCACAGACTCGAGTAGCTTCCCCATCCCAAGGCCAGGTGGGGTCATCGTCCCCCAAACGCTCAGGGATGACTGCCGTACCACAGCATCTGGGACCTTCACTGCAAAGGACTGTTCACGACATGGAACAATTCGGACAGCAGCAGTATGAAATCTACGAGAGGATGGTTCCACCTCGGCCAGACAGCCTGACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000013773-14-23,14-22,14-21-2/3
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
Human
(hg38)
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:
AGAGCTGAAGGGCAAACACTG
R:
AGTCGGTTACAGAGGGAGAGC
Band lengths:
99-104
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development