BtaALTD0011387-2/2 @ bosTau6
Alternative 5'ss
Gene
ENSBTAG00000016729 | KCNT2
Description
potassium channel, sodium activated subfamily T, member 2 [Source:HGNC Symbol;Acc:HGNC:18866]
Coordinates
chr16:6639628-6655959:+
Coord C1 exon
chr16:6639628-6639854
Coord A exon
chr16:6639855-6639928
Coord C2 exon
chr16:6655875-6655959
Length
74 bp
Sequences
Splice sites
5' ss Seq
ATGGTATGC
5' ss Score
7.14
3' ss Seq
GGCATTTATTTATCTTCTAGATG
3' ss Score
7.99
Exon sequences
Seq C1 exon
TCTCAGATATCCATCAGTGTAGAAGAGTGGGAAGACACCAAAGATGCTAAAGAACAAGGTCACCACCGAAGTAACCACCGCAACTCGACATCCAGCGACCAGTCGGATCACCCGCTGCTGAGGAGGAAGAGCATGCAATGGGCCCGAAGGCTGAGCAGGAAAGGCCCCAAACATTCCGGTAGAACCGCGGAGAAAATGACCCAGCAGCGCCTGAACCTCTACAGGAG
Seq A exon
GTCAGAAAGACAAGAGCTTGCTGAACTTGTGAAAAATAGAATGAAACACTTGGGTCTTTCTACAGTGGGATATG
Seq C2 exon
ATGAAATGAATGATCATCAAAATACCCTCTCCTACATCCTGATAAACCCATCTCCAGACACCAGACTGGAGCTGAATGATGTTGT
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000016729-36-37,37-37-2/2
Average complexity
Alt5
Mappability confidence:
NA
Protein Impact
Protein isoform when splice site is used (Ref)
No structure available
Features
Disorder rate (Iupred):
C1=0.842 A=NA C2=0.517
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:
GGAGGAAGAGCATGCAATGGG
R:
AGTCTGGTGTCTGGAGATGGG
Band lengths:
173-247
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development