RnoINT0078040 @ rn6
Intron Retention
Gene
ENSRNOG00000017283 | Kcnt1
Description
potassium sodium-activated channel subfamily T member 1 [Source:RGD Symbol;Acc:621106]
Coordinates
chr3:3340957-3342168:+
Coord C1 exon
chr3:3340957-3341051
Coord A exon
chr3:3341052-3341987
Coord C2 exon
chr3:3341988-3342168
Length
936 bp
Sequences
Splice sites
5' ss Seq
AGGGTGAGT
5' ss Score
9.25
3' ss Seq
CCTGCTCTTCCCGTTTCTAGGAC
3' ss Score
12.99
Exon sequences
Seq C1 exon
AATGACTTCCACCGTGCCATCCTGCGCACACAGTCAGCCATGTTCAACCAGGTGCTCATCCTGTTCTGCACCCTGCTGTGCCTGGTCTTCACAGG
Seq A exon
GTGAGTAGACACCTCACGGTCCCGTCAGGGGGCCATGGCTAGCACACTCCTCAGGCAGACCTCCAGCCTACAAGACAGGCCAAGGGGCGTGACAGATGGGACACAGTGCTGACCGAAGAACTTAGCTCCACGCGCCTATGTCCAGAACTCAGGGACACAGTGGCCCAACATCTGTTCTTGAAGGCGTCCTGCACAACCTTTGCAACTCTGAAGGGACCTGGCCCCCGGGGCTGAATGGGGACTGGGGACCCTTTGGTTTGATGTCCAGCTGAGAATGGAGTCTAGAAGCAGCCAGGGTCTTTTGGAGGGTCATCTAGAGTAGGGAGCTTCTGGTCACATGGGCAGACCTGCCAGCCTCCTGCATCTGCCTGTGGAATGGCCCTGCTCCGTATCTTCAAGAGGCCCAGTCACCTCCTGCTGTCCTTCAAGCAAGAATGAGCTGGCTAGGGATGGCTGTGGGGCCTGGAGGACAGGTTGGCAGGGCTTGGGGCTAGGAACTGCTGCAGCTTGTGGCAGCGCCACCCACCACTGCTGCCACCACGCCTCTTCGCTACCTAAGGGTGCCCCCTCACCATTGCAGCCCATCACCTCACTGCTGATTAGGGTGACCAGCTTTCCCAGGCTGAGACTTAAACTCAGTGCCAGAGGGCCCAGGGCCGCCTGCGGGTGATCCAGACTAGTCACCTGTATTCTGACGATCAGGAATGCATTGCTTAGGTGCTAGGTGACAGGGTCCCAGGACTGGTAGAGTCTTACCCCTCAAAGAGGGGAAAAGGTGGGAAGGTCCTGTTTCCCTGTCCACAGCAGCCAACTCAGGCAGCCCCACTCCACACTGCAGCCCTCTCTCCATTCACTTCCTCCCTCCTCGGCTGTGGCCCCTTCCCTACTTCTGCAGCCCCTCCCCCACTGCGGCAGCCCTGCTCTTCCCGTTTCTAG
Seq C2 exon
GACCTGTGGGATTCAGCACTTAGAGCGGGCAGGTGGCAACTTGAACTTGCTGACCTCCTTCTACTTCTGCATTGTGACTTTCTCAACCGTGGGCTTCGGTGATGTGACACCCAAGATCTGGCCATCCCAGCTCCTGGTGGTCATCCTGATCTGTGTCACCCTTGTGGTGCTCCCACTGCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000017283:ENSRNOT00000023542:10
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=0.000
Domain overlap (PFAM):
C1:
PF0788511=Ion_trans_2=PU(13.6=34.4)
A:
NA
C2:
PF0788511=Ion_trans_2=FE(74.1=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AATGACTTCCACCGTGCCATC
R:
ACAAGGGTGACACAGATCAGGA
Band lengths:
260-1196
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]