RnoINT0078047 @ rn6
Intron Retention
Gene
ENSRNOG00000017283 | Kcnt1
Description
potassium sodium-activated channel subfamily T member 1 [Source:RGD Symbol;Acc:621106]
Coordinates
chr3:3349224-3349988:+
Coord C1 exon
chr3:3349224-3349373
Coord A exon
chr3:3349374-3349749
Coord C2 exon
chr3:3349750-3349988
Length
376 bp
Sequences
Splice sites
5' ss Seq
GAAGTACGT
5' ss Score
7.46
3' ss Seq
TCCAGGCCATGTCTGCTCAGGTA
3' ss Score
4.86
Exon sequences
Seq C1 exon
GGAAGGACAGGAGTCACCAGAGCAGTGGCAGCGCATGTACGGGCGCTGCTCGGGCAACGAGGTGTACCACATTCGCATGGGTGACAGTAAATTCTTCCGGGAGTATGAGGGCAAGAGCTTCACCTACGCAGCCTTCCACGCGCACAAGAA
Seq A exon
GTACGTAGGGCTCGGGGTTGCCTATAGGGTTGGAGCCTGCTGTTCCCACCACCACTGGGACACTCATCCTCCCCACCCAGGGCCAGATCAACATGAGCAGGGCCCTGGGGCAGGAGGTCACAGAGTCACAGCTAAGGACAGGGTAACCTGGCCCTGTGTTCTTGGGGAGGACATCCCAGGACAAGGGTTCATGTAAGAACCTGCCACAGAGCTACTCCCCTCTGAAGCTTCTAAGGCTGACCTGGGATCCTCGAGTCCCAACACCCGAGGGGAGGGCTTGTCCAAGAAGCCCTGGGAGGAGGCTGAGTAGCTCAGGAGGACTATGAGCCACAGGGTGTCAGGAGTGGCCCTGAAGCTCCAGGCCATGTCTGCTCAG
Seq C2 exon
GTATGGGGTGTGCCTCATTGGGCTGAAACGTGAAGAGAACAAGAGTATCCTGCTGAACCCGGGGCCACGGCACATCCTGGCCGCCTCTGACACCTGCTTCTATATCAATATTACCAAGGAGGAGAACTCAGCTTTCATCTTCAAGCAGGAGGAAAAGCAGAAGAGGCGGGGCCTGGCAGGGCAGGCACTTTACGAAGGGCCCTCCCGGCTCCCAGTGCACAGCATCATCGCCTCTATGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000017283:ENSRNOT00000023542:17
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.098 A=NA C2=0.068
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
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GGAAGGACAGGAGTCACCAGA
R:
CTTCGTAAAGTGCCTGCCCTG
Band lengths:
347-723
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]