RnoINT0077735 @ rn6
Intron Retention
Gene
ENSRNOG00000009872 | Kcnh2
Description
potassium voltage-gated channel subfamily H member 2 [Source:RGD Symbol;Acc:621414]
Coordinates
chr4:7382383-7383756:+
Coord C1 exon
chr4:7382383-7382635
Coord A exon
chr4:7382636-7383562
Coord C2 exon
chr4:7383563-7383756
Length
927 bp
Sequences
Splice sites
5' ss Seq
TGGGTATGG
5' ss Score
6.23
3' ss Seq
GTCTCCTCCGTGGCCTCCAGGGA
3' ss Score
8.31
Exon sequences
Seq C1 exon
GTGCTGAAGGGTTTCCCCGAGTGCCTGCAGGCTGACATCTGCCTACATCTAAACCGCTCACTGCTGCAGCACTGCAAACCATTCCGAGGGGCCACTAAAGGCTGCCTGAGGGCCCTGGCCATGAAATTCAAGACCACACATGCGCCACCAGGGGACACGCTGGTGCACGCTGGGGACCTGCTTACTGCCCTCTACTTCATCTCCAGGGGCTCCATCGAGATCCTGCGGGGTGATGTCGTGGTGGCCATCTTGG
Seq A exon
GTATGGGGTGGGGATGCCCACTGAAACCCAGAGAGACCTGAGCCCTCTGAATACACAGGGGGTGTGGGGTTGCTGGCAGGATTCTTGGGTTCTTTTAACTCACCTGAGGAGGGGCCTTCAAGGTGGGCAATGGAGAGGAACCCCGCAGTACATGGGGTTGTTGGATTGGACACTACGTAGCCTCCCCTGCACTTCAGGATCTACCCATAGAAAGGCACCTAGTGTTTCCTTACGGTTGATCATCTCGTAGTTGAGCAGGATATACTCAGGTGGAGGATGTGCGTGTGTCACTAAGGACACGGTCCCCTGAAGCTTCATGTCCCGCCTGTAGCCATTGTGTGCATGGATGGCACTTGGAAAGCAGAGATTTCCTGCCCTCCCGGTTTTTTTTTTTCCTTTTTTTTTTTCCCAGTCCTACATGCATCAAACTTGGCATTTTAGACTTTTATTTTACAGTTCAGCCCAAACATGTGTACCACTTGAATCAAGTTTCCCTACACACGCGAGTGCGGTGCTAGGCCATGCTCTCCTGTTTTCTTTCAGTAAAACAGTACTGGTTCTGATTGATCACCGAGCTGCCTTTATCGTTTGGAGGCCATTGTTCTTAGGGGACTGTACTTTGCTAGGAGGGTGTTTGAGGATAGAAGTACGGTTGTCCCAAGAAGCCACGCCTGTAGGCCGAGCATCCTGGCTGAGTAGTTGTTGAGAGACTCCAAGTCCCTGGTCCCTTCCTCTGTCACCTCCGGCCACTGGTGTTGCCCCATCTGGAGAGCCCTGGGAACATGAGCTGGCCCATGTTTCCTTGGCCGTATGGCCGGGAGCTGGATGGCTGGAGATGCTGTCCAGGGTGGAGCTGACCCAGGGGGTGCCCGCTACTCTCCCACCGATGCCACAGGCTCAAGCCTCTGTCTCCTCCGTGGCCTCCAG
Seq C2 exon
GGAAGAACGACATCTTTGGAGAGCCTCTGAACCTGTATGCACGTCCTGGGAAGTCCAATGGGGATGTGAGGGCCCTCACTTACTGTGACCTGCACAAGATCCATCGAGACGATCTGCTGGAGGTGTTGGACATGTACCCCGAGTTCTCAGACCACTTTTGGTCTAGCCTGGAGATCACCTTCAACCTTCGAGAT
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000009872:ENSRNOT00000013800:9
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=0.015
Domain overlap (PFAM):
C1:
PF0002724=cNMP_binding=PU(45.5=47.1)
A:
NA
C2:
PF0002724=cNMP_binding=PD(53.4=72.3)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
ATCTAAACCGCTCACTGCTGC
R:
ACTCGGGGTACATGTCCAACA
Band lengths:
351-1278
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]