BtaINT0079855 @ bosTau6
Intron Retention
Gene
ENSBTAG00000018975 | KCNT1
Description
potassium channel, sodium activated subfamily T, member 1 [Source:HGNC Symbol;Acc:HGNC:18865]
Coordinates
chr11:103421815-103422463:+
Coord C1 exon
chr11:103421815-103421964
Coord A exon
chr11:103421965-103422224
Coord C2 exon
chr11:103422225-103422463
Length
260 bp
Sequences
Splice sites
5' ss Seq
GAAGTACGG
5' ss Score
4.02
3' ss Seq
CCGTCCGTCCGTCCCCCCAGGTA
3' ss Score
12.02
Exon sequences
Seq C1 exon
GGAAGGCCAGGACTCGCCAGAGCAGTGGCAGCGCATGTACGGACGCTGCTCGGGCAACGAGGTCTACCACGTGCGGATGGGGGACAGCAAGTTCTTCCGCGAGTACGAGGGCAAGAGCTTCACCTACGCCGCCTTCCACGCGCACAAGAA
Seq A exon
GTACGGCCCCTTGCACCCTGTCCAGGCCAAGGAGGGAGGGAGCGCTGAGCGGGACTCGGAGGCAGAAGTGGGCGGGACCTCGCCCAGCGTCGGGAGGGTGGGCGGGGCCTCGGGGCCGGACGCCACGCCCACTCAGCGTGAGACCTGCGCCCAGCACCTCTCTCTGAGGCAACCCTCGGTGGGTCTTCGGGGTCCCGACCCTCACGAGGAGCCCGAGAGGGGCAGCTCTGGGCTCCACCCCCGTCCGTCCGTCCCCCCAG
Seq C2 exon
GTACGGCGTGTGCCTCATCGGCCTGAAGCGCGAGGACAATAAGAGCATCCTGCTGAACCCGGGCCCACGGCACATCCTGGCGGCCTCCGACACCTGCTTCTACATCAACATCACCAAGGAGGAGAACTCGGCCTTCATCTTCAAGCAGGAGGAAAAGCAGAAGAGGAAGGGCTTCGCGGGGCAGGGGCTGTACGAGGGCTCATCCCGCCTGCCGGTGCACAGCATCATTGCCTCCATGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000018975:ENSBTAT00000025261:16
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.078 A=NA C2=0.037
Domain overlap (PFAM):
C1:
PF0349313=BK_channel_a=FE(47.2=100)
A:
NA
C2:
PF0349313=BK_channel_a=PD(8.5=11.1)
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:
AGCAAGTTCTTCCGCGAGTAC
R:
AATGATGCTGTGCACCGGC
Band lengths:
294-554
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development