RnoINT0077727 @ rn6
Intron Retention
Gene
ENSRNOG00000009872 | Kcnh2
Description
potassium voltage-gated channel subfamily H member 2 [Source:RGD Symbol;Acc:621414]
Coordinates
chr4:7385400-7387253:+
Coord C1 exon
chr4:7385400-7385577
Coord A exon
chr4:7385578-7386702
Coord C2 exon
chr4:7386703-7387253
Length
1125 bp
Sequences
Splice sites
5' ss Seq
CAGGTACAT
5' ss Score
7.79
3' ss Seq
ACGCTCCGTGCTCTTTGCAGGTT
3' ss Score
10.89
Exon sequences
Seq C1 exon
GCTGGAAACCCGGCTAAGTGCAGACATGGCCACTGTCCTACAGCTGCTACAGAGGCAAATGACCCTGGTCCCTCCTGCCTACAGTGCTGTGACCACCCCTGGGCCTGGCCCCACTTCCACGTCCCCTTTGTTGCCTGTCGGCCCCGTCCCCACTCTCACCCTGGACTCGCTTTCTCAG
Seq A exon
GTACATTCTGGAGCCTACTCCCAGCCCCAGCCACACCCTTTCTGCCCCAACAGCTGCTTTGTTACCTCTCAGTGGGCATGAAATGTGGCCCCTTCACACCCCTATCCTCTTCTCCCTGCTCCTGCTTTCCTCCTGCCACTGCTCAGGAGCAATGCAGAAGAGGACTGGAGCTGGACAGCCTGCCCATAGGGCAGCCTAAGGGCCAGATGTAAACATGGTATCTGGGACTTGGGTCTGGATGCTGCTTGAGGGTATGCTTCAGGATAGTGTCTTGGTCCCTGCTGTGGTTAGACTCCCCTAGCTTTGCCTATTGCCTTGGCTCCTACTCCAAGTGCTACAGAACCATCCTGAAGGCTGCTGGCATTTTCTGGGTGCCTAAGTCAAGGCTCTGAGATAGGACCTCCCTGACCCACATTTCTTCTCTTTGAGTAGCCTCCTGAGGGACAGCTGGGTCTTTTCTGCCAGCTCCAGCTTTGATGGGTGCTTGAGGGGGGCTCCTGTGGCTTCCAGAGGGGGCCTGGGATCTCCTCCGGTCCCCGGCTCCGCTCCCGGTCCCATATGCTGCTTGTTCCTGTTTGCAGACACCAGGGCCCACGTCAGCAAATGTGCCAGTCTCCCTTTACAGCCTCCCCCGCAGGGAATCTCACCAGTAGTCACGGCAGCACCCACAAACCCCTCCTGCCTGCCCTGGTGCTCTCGCTGGCCTCAGAGACCTGGCTGCTGGCCCACTGTTGTTTCCGGGGGGGGGGGGCAGGTTCTTCAGAGAATTGCACGCAGACACCTGGTCTCCCTGTCTTAGTTGCCTTCCCGAGGCAGGGACTTCTTATTCCACATAGGATTTGGCTCCAGCTGCCGGGCCACATTCCCTAGGGAAGGGAAAGGTGAGAGCTTGGACTCCAGCTTCCCTGGGTGTAGAGCAAGGTCCTCTGTCGGGGTGCTTCTGCAGTGGCTCTTTCGTTTGGCTCCTCCCACAAAGTTGCATTTCTTTACTTCCAGTAGTAGCAGCCTCCTTGTCCCCTTCTCTCGACCTCCAGTCCTCCTGGCTTTGTTTTCTCCGCCCCTTTCTCCGCCTCTTTCTCCTCCCCCACAGTTTGTCTGCCTGCTCACGCTCCGTGCTCTTTGCAG
Seq C2 exon
GTTTCCCAGTTCGTGGCGTTTGAGGAGCTTCCTGCAGGAGCCCCAGAGCTCCCCCAAGATGGCCCCACTCGACGCCTCTCCCTGCCGGGCCAGCTGGGGGCCCTCACCTCCCAGCCCCTGCACAGACATGGCTCAGATCCAGGCAGTTAGTGACGCTGCCCGGTGTGGACACGTGGCTCACCCTGGGGTCAGGGGATTACCTGACCGCTCTCCTTGGAGACCCTGGTTTGAAGGGGAGAACAGTGCAGGAGCACCTCCTCCCCCGCCCTTGGGACCAGCATCTCCTCCTGCAATACCCTGGGCCCCACTGGGAGGGGCAGGGGCAGAGCTGGGCAGTGGACAGGGGGTCTGTGGTCCCCCCACTGCCCTGGGGGCATTAGCTGGTCTAACTGCCCGGAGGCACCCGGCCCTGGGCCTTAGGCACCTCAAGGACTTTTCTGCTATTTACTGCTCTTATTGTTAAGGATAATAATTAAGGATCATATGAATAATTAATGAAGATGCTGATGACTATGAATAATAAATAATTATCCTGAGGAGACGCCAGGGTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000009872:ENSRNOT00000013800:14
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.572 A=NA C2=0.802
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CAGAGGCAAATGACCCTGGTC
R:
AGGAGAGCGGTCAGGTAATCC
Band lengths:
343-1468
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]