RnoINT0078076 @ rn6
Intron Retention
Gene
ENSRNOG00000013312 | Kcnt2
Description
potassium sodium-activated channel subfamily T member 2 [Source:RGD Symbol;Acc:735074]
Coordinates
chr13:57403454-57405227:+
Coord C1 exon
chr13:57403454-57403624
Coord A exon
chr13:57403625-57404997
Coord C2 exon
chr13:57404998-57405227
Length
1373 bp
Sequences
Splice sites
5' ss Seq
AAAGTATGT
5' ss Score
6.93
3' ss Seq
TATTCTTCTTTTAAATTAAGGTT
3' ss Score
6.68
Exon sequences
Seq C1 exon
GTGTGTGTGCTTGTGTTGCAGAGAAGGGCAGCAGTCACCTGAACAGTGGCAGAAGACGTATGGGAGGTGCTCAGGAAATGAAGTCTACCACATCGTTCTGGAAGAAAGTACATTTTTTGCTGAATATGAAGGGAAGAGTTTTACCTATGCTTCTTTCCATGCACACAAAAA
Seq A exon
GTATGTTTCGGATTCCAGTGGAGAGTTAGCTCATCAGCCAGCCAATCAGAACATTTGTACAGTTTCCCAAACTCGTACTCCCGAGTTGGATGTCTTTAGGGATTTTCAGCATTATTTTTGTTCCATTTTTAACTATAGATTTAGTACTTCCTGTAAGATGTATTTACCAGGAGGAAAATATGTTAGGAATCTCTACTCTGCCACATCTTAGACTCTCACAGCATCCTACCGCATTAATAATTTATAGCTATCCAATAATGTGTTTTGTTACCTAAATGAAATTTAAAGAGATGTTTGGTTTTATTTGTATTTGAAAACCAAGAAACCCTTGAAAAAGAATACAACAAAAGAAGAAAGAAAGCACCCTTTTCCCCCTTCGATCTTTTGAATCATGGTCTCATGTACCTCAGGGTGTCCTCAAACTTACGACATGCACGAGGCTAATTTTTTCCTCTTTCCACTTTCATTTCTAAAACAACACATAACTCTCCAAAAAGAAATGGATATGAGACACTTTTCTTTCCCTTTTATAATTTCCCTTTTATTAATAACTTAAGGAATTAAAAATATATCAAAAATCACCTATATTAAAGAATATTATTTAATGAAATCTTGGACACTTTATATTAATGTTATTCTTTAATAAATAATGTACTCAAATTTAACACTCTATGCTACTATTTATACATATTTTAAAACTACATGTATTTTAAAATTTGACTTAGTAACATACTCTGTTTTGTATGAAGAAGAATTTTGAAAGTTAGAACATTACCAGAGATCAATAATAAATATTTAAATACAATATTTATTATTTATAAATATTTAAATACAATATTGCACTCAGAGTTTTGAAGTTCTCCTATAGAATATGTATGACCATAGAGGAACAGTTAAAATGTTTCTTTCTTGAATGTATGAAAGGTGACAGAGGTGGTAAGCAAGAGCAGTTCAAAGACATCACTTTCTTTCACATGACATTAGATATGAATCTCTTTTATGCCAATCAATTATAAACATTCTGAGAAAGGTAAGACATATTGTTCATAGCTTCGACATTATTAATTATCTTAAGAATTATAAAGTAATGTTATCTCTACTGTATGACAAGCAATCTAATATTCTATATTGCTTTATTTTTTATTTATATATACCATAATGCTTGAGACTAATAGAATTTATATATTTTTAAAAAGTGAGATTATCAAATGTTAGGACTCTGTCTGGTCCCTAATTCTATTTTGATGTTCTTATTTTGTTCTGTTTGATTAGAGTTGAATAATTTTCTTAAAATATAAATATTTGAAAGAAAAAAGCTAAGAACTTTTTCAAATTGTAATTCTTAAACTCTTATATTCTTCTTTTAAATTAAG
Seq C2 exon
GTTTGGTGTCTGCTTGGTTGGTGTTAGGAGGGAGGATAATAAAAACATTTTGCTGAATCCAGGTCCTCGATACATTATGAATGCTTCAGACATATGTTTTTATATTAATATTACCAAAGAAGAAAATTCAGCATTTAAGAATCAAGACCAACAGAGAAAAAGTAATGTGTCAAGGTCATTTTATCATGGGCCTTCCAGATTGCCTGTCCACAGTATCATTGCCAGCATGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000013312:ENSRNOT00000017884:15
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.012 A=NA C2=0.122
Domain overlap (PFAM):
C1:
PF0349313=BK_channel_a=FE(50.4=100)
A:
NA
C2:
PF0349313=BK_channel_a=PD(8.0=11.5)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CAGTCACCTGAACAGTGGCAG
R:
GCAATCTGGAAGGCCCATGAT
Band lengths:
343-1716
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]