RnoINT0078055 @ rn6
Intron Retention
Gene
ENSRNOG00000017283 | Kcnt1
Description
potassium sodium-activated channel subfamily T member 1 [Source:RGD Symbol;Acc:621106]
Coordinates
chr3:3355483-3356770:+
Coord C1 exon
chr3:3355483-3355594
Coord A exon
chr3:3355595-3356668
Coord C2 exon
chr3:3356669-3356770
Length
1074 bp
Sequences
Splice sites
5' ss Seq
AAGGTAAGC
5' ss Score
10.22
3' ss Seq
CGAGGATCCCTTTCTTGCAGCAA
3' ss Score
5.62
Exon sequences
Seq C1 exon
GCTTTTCCCCAGTCTCAGCATCACCACGGAGCTCACGCACCCTTCCAACATGCGGTTCATGCAGTTCCGGGCCAAGGACAGCTACTCTCTGGCTCTTTCCAAACTTGAAAAG
Seq A exon
GTAAGCGGGCTCCTCCTGGTAGGCCGTCCTTCACCGAGGAGCCCAGTGAGAACAGGACAGAGGAGAGGGCAGGGCTGTGGGAGCTGAGGAGACAGGCTCAGCTGATGGTGCTCTCTGTGGTGCTCCCGGCCCGCGCACCTGCAGGTCAATGGTAATCTGGGCTCAGCCAGCAACCATTAACAGATACCTACAGCCCACTGGGTACCAGACACTGCCTGTGTTCTCCACACTGAGGATCAGAGAGTGGAGAGACCTGTGCTGATCACACAGCAGATGGAGCAACAATGGCAGAGCTGTGCCTAACTCTTGCACTTCTGACACTGGAGCTCTGTGGGAGGTGTCAGGTCCCACTGGGCCAGATGTGGAACTCAGGGACATAGGGACTCGGCAAGGTATTATAAACACACTAAGGACCCAGAAACCCACTAGGCGTGTGGAGAGACGGGTCACTGTCTGCATTGCCATGTGTATAGTGGCTTGGCCCTTCCTGCTATTCACATAGGGATGGCCAGGCACTGGGGTAAGGACAATGGAAGCCATGTATTAGGATGAGGACAGCAAGGCCAGGTATGGATGAGGAAGCCATGGCTGCCAATGCCTGCTGTTCTGTGTGAGTCCCAAGTTCAGCCTGGGCCGGCATGCTTGTGGAGAGCTGCGGGGACCAGCATGGCTGACTGAGGAAGACCCAGAGTTGTCTGGGACAGTGTGTGTGAGACCCTGGGTTCCACATACAGGATAGGTCCCACTCTCTTCTCAGAGTCCCAGACTCTCCCTGGGCTCTGGCCCTGAGTGTGTGGGAAATGCAACTGGATATTCAAGCCTGCTGGCATGAAGTCTGTTGGTGTATGCACAGATGCACATCCATGTACACATACCATGCACATACAACACATGCATGTGCATGCATGTCATGCACACACGCTCATATACCACTTATACACACAAATGCATCATGGACATACCACACAGACATGTACATACATATGCACACATATGCCACACATACACATCCTATATGCACATCTGATGGCTACCCACAATCCTTTGTGTCATCCGAGGATCCCTTTCTTGCAG
Seq C2 exon
CAAGAACGGGAGAATGGCTCCAACCTGGCCTTCATGTTCCGCCTGCCATTTGCTGCTGGTCGGGTGTTTAGTATCAGCATGTTGGATACGCTGCTCTACCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000017283:ENSRNOT00000023542:24
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:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GCTTTTCCCCAGTCTCAGCAT
R:
CTGGTAGAGCAGCGTATCCAAC
Band lengths:
214-1288
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]