BtaALTD0016430-2/2 @ bosTau6
Alternative 5'ss
Gene
ENSBTAG00000013773 | PKP4
Description
Bos taurus plakophilin 4 (PKP4), mRNA. [Source:RefSeq mRNA;Acc:NM_001191491]
Coordinates
chr2:37880383-37880745:-
Coord C1 exon
chr2:37880690-37880745
Coord A exon
chr2:37880684-37880689
Coord C2 exon
chr2:37880383-37880573
Length
6 bp
Sequences
Splice sites
5' ss Seq
AGGGTCTGT
5' ss Score
2.7
3' ss Seq
TGCTGGTTTCATTCCTGCAGGAT
3' ss Score
10.49
Exon sequences
Seq C1 exon
GACAGAGCCAGAACCAGGGACCCTCTACTCACCAGAACAGACGTCTCTCCATGAAA
Seq A exon
GTGAGG
Seq C2 exon
GATCTTTGGGTAACTCAAGAAGTTCAACACAAATGAATTCTTATTCCGACAGTGGATACCAGGAAGCAGGGAGTTTCCACAACAGCCAGAACTTGAGTAAAGCAGATAACAGACCACAGCATTCATTCGTAGGATCAACTAATAACCACCTGGTGAGGAATTCAAGAGCTGAAGGGCAAACACTGGTTCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000013773-12-17,13-17-2/2
Average complexity
Alt5
Mappability confidence:
NA
Protein Impact
Protein isoform when splice site is used (Ref)
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 Skipping Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
ACCAGAACAGACGTCTCTCCA
R:
ACTCCCTGCTTCCTGGTATCC
Band lengths:
100-106
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development