BtaALTA0022364-2/2 @ bosTau6
Alternative 3'ss
Gene
ENSBTAG00000013773 | PKP4
Description
Bos taurus plakophilin 4 (PKP4), mRNA. [Source:RefSeq mRNA;Acc:NM_001191491]
Coordinates
chr2:37866236-37868744:-
Coord C1 exon
chr2:37868556-37868744
Coord A exon
chr2:37866453-37866455
Coord C2 exon
chr2:37866236-37866452
Length
3 bp
Sequences
Splice sites
5' ss Seq
CAGGTGGGC
5' ss Score
8.07
3' ss Seq
TTAAAATGTTGACTTTCTAGTAG
3' ss Score
4.48
Exon sequences
Seq C1 exon
GCTTACGGAGTTCCTATGCTAGTCAGCACAGCCAACTTGGACAAGACCTTCGTTCAGCTGTGTCTCCCGACTTGCACATCACTCCTATATATGAGGGGAGGACCTATTATAGCCCAGTGTACCGCAGCCCAAACCACGGAACCGTGGAGCTCCAGGGATCACAGACAGCGCTGTACCGCACAGGCTCAG
Seq A exon
TAG
Seq C2 exon
GTGTTGGAAATCTGCAAAGGACGTCCAGCCAACGAAGTACCCTTACATACCAAAGAAATAATTATGCTCTGAACACAACAGCTACCTATGCGGAGCCCTATAGGCCAATACAGTACCGAGTGCAAGAGTGCAATTATAACAGGCTTCAGCACGTAGCACCGGCTGATGATGGCACAACGAGATCCCCGTCAATAGACAGCATTCAGAAAGACCCCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000013773-17-26,17-25-2/2
Average complexity
Alt3
Mappability confidence:
NA
Protein Impact
Protein isoform when splice site is used (Ref)
No structure available
Features
Disorder rate (Iupred):
C1=0.734 A=NA C2=0.554
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF0051418=Arm=PU(9.8=5.4)
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
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:
CAGTGTACCGCAGCCCAAAC
R:
GCTGGACGTCCTTTGCAGATT
Band lengths:
104-107
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development