BtaALTD0011344-2/2 @ bosTau6
Alternative 5'ss
Gene
ENSBTAG00000008710 | KCNH1
Description
potassium voltage-gated channel subfamily H member 1 [Source:RefSeq peptide;Acc:NP_776797]
Coordinates
chr16:74208285-74216257:+
Coord C1 exon
chr16:74208285-74208677
Coord A exon
chr16:74208678-74208758
Coord C2 exon
chr16:74216157-74216257
Length
81 bp
Sequences
Splice sites
5' ss Seq
CAGGTACAT
5' ss Score
7.79
3' ss Seq
TATGGATCGTAGCCCACCAGGCT
3' ss Score
-2.89
Exon sequences
Seq C1 exon
GTTCTGCAGCTGGGCTCAGACATCCTTCCCCAGTACAAGCAAGAGGCACCAAAGACTCCCCCGCACATCATCTTACACTACTGCGTTTTTAAGACCACGTGGGACTGGATCATCCTGATCCTAACCTTCTACACAGCCATCCTGGTTCCTTACAACGTCTCCTTTAAAACCAGGCAGAACAACGTGGCCTGGCTGGTTGTGGACAGCATCGTGGATGTCATTTTTTTGGTGGACATTGTGCTGAATTTTCACACCACTTTTGTTGGACCCGCTGGGGAGGTGATTTCTGACCCCAAACTCATTCGCATGAACTACCTGAAGACGTGGTTTGTGATTGACCTTCTGTCCTGTTTGCCCTATGACGTCATCAACGCTTTTGAGAACGTGGATGAG
Seq A exon
GTTAGTGCCTTTATGGGTGATCCAGGGAAGATTGGTTTTGCTGATCAGATTCCACCACCCCTGGAGGGGAGAGAGAGTCAG
Seq C2 exon
GCTCCTCTGTCCATGGGATTCTCCAGGCAAGAATACTGGAATAGGTTGCCACTTCCTACTCCAGGGGATCTTCCCGACCCAAGGATCAAAGCTGCACTTCC
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000008710-7-12,8-12-2/2
Average complexity
Alt5
Mappability confidence:
NA
Protein Impact
Protein isoform when splice site is used (Ref)
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=NA
Domain overlap (PFAM):
C1:
PF084125=Ion_trans_N=WD(100=45.0),PF0052026=Ion_trans=PU(29.5=49.6)
A:
NA
C2:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
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:
CTGACCCCAAACTCATTCGCA
R:
TGGAGTAGGAAGTGGCAACCT
Band lengths:
170-251
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development