BtaALTA0015522-2/2 @ bosTau6
Alternative 3'ss
Gene
ENSBTAG00000018975 | KCNT1
Description
potassium channel, sodium activated subfamily T, member 1 [Source:HGNC Symbol;Acc:HGNC:18865]
Coordinates
chr11:103422225-103422941:+
Coord C1 exon
chr11:103422225-103422463
Coord A exon
chr11:103422707-103422712
Coord C2 exon
chr11:103422713-103422941
Length
6 bp
Sequences
Splice sites
5' ss Seq
TGGGTGAGG
5' ss Score
6.74
3' ss Seq
GTCCAGCCACTCTGTTCTAGGGA
3' ss Score
6.16
Exon sequences
Seq C1 exon
GTACGGCGTGTGCCTCATCGGCCTGAAGCGCGAGGACAATAAGAGCATCCTGCTGAACCCGGGCCCACGGCACATCCTGGCGGCCTCCGACACCTGCTTCTACATCAACATCACCAAGGAGGAGAACTCGGCCTTCATCTTCAAGCAGGAGGAAAAGCAGAAGAGGAAGGGCTTCGCGGGGCAGGGGCTGTACGAGGGCTCATCCCGCCTGCCGGTGCACAGCATCATTGCCTCCATGG
Seq A exon
GGACAG
Seq C2 exon
TGGCCATGGACCTCCAGAATACGGAGTGCCGACCCACACAGAGTGGCGGGGGCAGTGGGGGCAGCAAGCTGGCGCTCCCCACGGAGAACGGCTCAGGCAGCCGGCGGCCCAGCATCGCGCCGGTGCTGGAGGTGGCTGACAGCTCAGCCCTGCTGCCCTGCGACCTGCTGAGTGACCAGTCAGAGGACGAGATGACGCCGTCGGAGGATGAGGGGCTGTCCGTGGTGGA
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000018975-28-23,28-22-2/2
Average complexity
Alt3
Mappability confidence:
NA
Protein Impact
Protein isoform when splice site is used (Ref)
No structure available
Features
Disorder rate (Iupred):
C1=0.037 A=NA C2=0.646
Domain overlap (PFAM):
C1:
PF0349313=BK_channel_a=PD(8.5=11.1)
A:
NA
C2:
NO
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AAGCAGAAGAGGAAGGGCTTC
R:
TATTCTGGAGGTCCATGGCCA
Band lengths:
106-112
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development