RnoINT0078096 @ rn6
Intron Retention
Gene
ENSRNOG00000013312 | Kcnt2
Description
potassium sodium-activated channel subfamily T member 2 [Source:RGD Symbol;Acc:735074]
Coordinates
chr13:57308610-57310030:+
Coord C1 exon
chr13:57308610-57308790
Coord A exon
chr13:57308791-57309865
Coord C2 exon
chr13:57309866-57310030
Length
1075 bp
Sequences
Splice sites
5' ss Seq
CAGGTAAAC
5' ss Score
7.82
3' ss Seq
ATGTGGAAAATTCATTACAGTTT
3' ss Score
2.41
Exon sequences
Seq C1 exon
CATTTGTGGAATTCAGCATCTGGAACGAATTGGAAAGAAACTCAATCTCTTTGACTCCCTTTATTTCTGCATTGTGACATTTTCTACTGTGGGCTTTGGGGATGTTACTCCTGAAACATGGTCCTCCAAGCTTTTTGTTGTTGCTATGATCTGCGTTGCTCTTGTAGTTCTCCCCATACAG
Seq A exon
GTAAACAGAGCCCTGTTAACCTCTGTAGAGATGTGCAAAGCCATGTAAACTAGAAACTTCTATATTAATAAAAAATGTACTTGATTGTTTCTTTAACACTGGTGTTATATGATATGCTATTAATAGTTTAACGAAGTGCTTACACTGTCACAGAAATGTTTTTATAAATTTTATTAGATGCCTTTTCCCTCACTGGCATACTTGATTGCTTCCATTTAATTCGATTTCAATATTTTTTCAAAAATATAAATTATGTGGTGTCATTAACTATTAAATAATTTTAAGTTATAGGATGTTAAATTAAGGATTATGTTCAGAGAATAAATAGAAAAGGAAAAAGCAAAGACATAAATTGCAGTAGGTTTAAAGTTAATTTCTTATGTTTATCAAATAAAGCATGCAGTTGACAAGTCGTGTGCATTATCAAGCATTTGGAGAGACTGCACGGGTCAGAGATATGAACAATGACTAGTCTTCATTTCTTTTTTTGTAATGAATCCTGGTTTCCCATGAATGAACAAGCCAAGAACACAACACTATAAATGCAAATTAAACCTGCATGCTCATTACACAAGCTTAGCCAGCTCACACTGTCATGCCTAGCTCCCATACCTTCCTCTATAACACCACCCAGTTCACTAGAGTACTCATGTCCACATAGCTAGCATGAGGCATTGTGCATGATAAGCAGCAGCCTCCCCATGCATGATATGGAAACAACAGGGCAGAAGAATTTGGAGAAAAAGAGGCAGAGCTGTTAAACTACATTTAATGAATGGCATATTACATCAGACTTTCCTGGACACAAAGCAGGTGGACCAGCCCCTTTGTGGTCTGAGATGGTATAATAGTAAACTCTTTCTAGTGCATTTCTTTGAAAACCTGAAACCCCTGGGTCTCGTTTGAAATCTCTCTGGAAATCATGTGGTCAGCCTGTTGTGTAGTAGTGATAATTTGATACTCACCTGTTTTAAGGGTAAGAAATGCCATGTAACTGAGAACAGCTGGGGCACTGTATTGGGCATTCGCTTTCATGTGTGGTGTTTTGCATTCTCATGTGGAAAATTCATTACAG
Seq C2 exon
TTTGAACAGCTGGCCTATTTGTGGATGGAGAGACAAAAGTCGGGAGGAAACTATAGTCGACACAGAGCTCAGACTGAGAAGCATGTTGTTCTGTGTGTCAGCTCATTGAAGATTGACTTGCTTATGGATTTTTTGAATGAATTCTATGCACATCCAAGACTGCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000013312:ENSRNOT00000017884:9
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=FE(71.4=100)
A:
NA
C2:
PF0788511=Ion_trans_2=PD(9.5=14.5)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TGTGGAATTCAGCATCTGGAACG
R:
CTGCAGTCTTGGATGTGCATAGA
Band lengths:
342-1417
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]