BtaINT0079854 @ bosTau6
Intron Retention
Gene
ENSBTAG00000018975 | KCNT1
Description
potassium channel, sodium activated subfamily T, member 1 [Source:HGNC Symbol;Acc:HGNC:18865]
Coordinates
chr11:103420935-103421964:+
Coord C1 exon
chr11:103420935-103421043
Coord A exon
chr11:103421044-103421814
Coord C2 exon
chr11:103421815-103421964
Length
771 bp
Sequences
Splice sites
5' ss Seq
CCAGTGAGT
5' ss Score
8.28
3' ss Seq
ACGTCCTGCCCGCGCCCCAGGGA
3' ss Score
6.17
Exon sequences
Seq C1 exon
AGCACGTGGTGTGCGAGGAGGAGTGCAAGTATGCCATGCTGGCCCTCAACTGCATCTGCCCAGCCACGTCCACCCTCATCACCCTGCTGGTGCACACGTCCCGCGGCCA
Seq A exon
GTGAGTTCTGCCCTGGGACCACCACGTGGCATGCAGCGTGCTGCCCTGGAGAGGAGCAGACACTGGAGGCAGGGGACGTGTTGAGGAGCCTGTGATGGGGGCGGGGGTGGGGGGGGGTGAGGAGCCCGAGATGGGAGTGGGTGGCGACCCGGGAGGACCCAGCTGGGAAGCAGTAGGTGCCTTGCCAGGATTGGGAGCTGGGGGCGGCCTTGGGGCTGCAGGGAATCACAGGCAGGGACCTCCATGAAGCAGAGGGCCTAGTGGGGGTGGGGGGCTCAGGAGAGCCACCGAGTCTAGAAACAGCAATAGGGGCAGGCAGGGTGGTTGGGGGACACGCTTGGCCTGTGGGAGAAGGCGCGTTGGTGTTCAGCACCTGAGCTGGGGTCCCAGGTAGAGCGGGAGGTGAGGGGCTGCCCGGGACAGAGGAGGGGTGCCATCTTCTCTCTAGCAAGACACCCCAACGGGTGGCCTTGGCTCCTTGTGGGGCCTGGGCGGCCCTCGGGGAGGGACCAAGGAGATGTCGGAGGACCCACAGGCCACAGAAGCCGGTCTTGACTCTGAAACCTTTTGACCCCCCTGAAAGCTGGACCATTATGTTCACAGCTCTTTAAAACTGGCGGAGGGACCCATCAGGCCACACCCGGGTGTAGTCTCCCACAGACGGGGAGGGGCGGGGTCAGGGGTCACGTTGCCTTCCACTCACCCTGGAAGCCTGGAAGCGGCCAGGCCAGGCGGGGCAACGGTGGGGGTGACGTCCTGCCCGCGCCCCAG
Seq C2 exon
GGAAGGCCAGGACTCGCCAGAGCAGTGGCAGCGCATGTACGGACGCTGCTCGGGCAACGAGGTCTACCACGTGCGGATGGGGGACAGCAAGTTCTTCCGCGAGTACGAGGGCAAGAGCTTCACCTACGCCGCCTTCCACGCGCACAAGAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000018975:ENSBTAT00000025261:15
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.078
Domain overlap (PFAM):
C1:
PF0349313=BK_channel_a=FE(34.0=100)
A:
NA
C2:
PF0349313=BK_channel_a=FE(47.2=100)
Main Inclusion 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:
GTGGTGTGCGAGGAGGAGT
R:
TTCTTGTGCGCGTGGAAGG
Band lengths:
254-1025
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development