BtaALTA0015478-2/2 @ bosTau6
Alternative 3'ss
Gene
ENSBTAG00000004078 | KCNH2
Description
potassium channel, voltage gated eag related subfamily H, member 2 [Source:HGNC Symbol;Acc:HGNC:6251]
Coordinates
chr4:114327812-114328780:-
Coord C1 exon
chr4:114328681-114328780
Coord A exon
chr4:114327898-114328084
Coord C2 exon
chr4:114327812-114327897
Length
187 bp
Sequences
Splice sites
5' ss Seq
AGGGTGAGG
5' ss Score
7.13
3' ss Seq
CCGTTCTCTGTCTCCCACAGACC
3' ss Score
12.82
Exon sequences
Seq C1 exon
ACCAACATGATCCCCGGCTCTCCGGGCAGCGCGGAGTTGGAGGGCGGGTTCAACCGGCAACGCAAACGCAAGCTGTCCTTCCGACGGCGCACGGACAAGG
Seq A exon
ACCCGGAGCAGCCAGGGGAGGTGTCGGCCTTGGGGCCGAGCCGGGCGGGGGCAGGGCCGAGTGGCCGGGGCCGGCAGGGGGGGCCGTGGGGGGAGAGCCTGTCCAGCGGCCCCTCCAGCCCCGAGAGCAGTGAGGATGAGGGCCCAGGCCGCAGCTCCAGCCCCCTCCGCCTGGTGCCCTTCTCCAG
Seq C2 exon
CCCCAGGCCCCCCGGAGAGCCGCCGGGTGGGGACCCCCTGACCGAGGATGGCGAGAAGAGCAGCGACACTTGTAACCCACTATCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000004078-16-15,16-14-2/2
Average complexity
Alt3
Mappability confidence:
NA
Protein Impact
Protein isoform when splice site is used (Ref)
No structure available
Features
Disorder rate (Iupred):
C1=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
Human
(hg38)
No conservation detected
Mouse
(mm10)
No conservation detected
Rat
(rn6)
No conservation detected
Chicken
(galGal4)
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:
ACCAACATGATCCCCGGCTC
R:
CTGATAGTGGGTTACAAGTGTCGC
Band lengths:
186-373
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development