BtaALTA0015490-2/2 @ bosTau6
Alternative 3'ss
Gene
ENSBTAG00000016613 | KCNH6
Description
potassium channel, voltage gated eag related subfamily H, member 6 [Source:HGNC Symbol;Acc:HGNC:18862]
Coordinates
chr19:48502740-48503139:+
Coord C1 exon
chr19:48502740-48502894
Coord A exon
chr19:48503054-48503056
Coord C2 exon
chr19:48503057-48503139
Length
3 bp
Sequences
Splice sites
5' ss Seq
CTGGTATGC
5' ss Score
6.73
3' ss Seq
GCCCTGTACTTCACCTTCAGCAG
3' ss Score
6.67
Exon sequences
Seq C1 exon
ACCACAACCCTGATTGGACTGCTGAAGACAGCGCGGCTGCTGCGGCTGGTGCGTGTGGCTCGGAAGCTAGACCGCTACTCTGAGTATGGGGCGGCCGTGCTCTTCCTGCTCATGTGCACCTTTGCGCTCATCGCGCACTGGCTGGCCTGCATCTG
Seq A exon
CAG
Seq C2 exon
CCTCACCAGCGTGGGCTTTGGCAACGTGTCCCCCAACACCAACTCCGAAAAGGTCTTCTCCATCTGCGTGATGCTCATTGGCT
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000016613-5-6,5-5-2/2
Average complexity
Alt3
Mappability confidence:
NA
Protein Impact
Protein isoform when splice site is used (Ref)
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0052026=Ion_trans=FE(42.9=100)
A:
NA
C2:
PF0052026=Ion_trans=PD(0.8=3.3)
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:
CTTCCTGCTCATGTGCACCTT
R:
TTTTCGGAGTTGGTGTTGGGG
Band lengths:
105-108
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development