RnoINT0077750 @ rn6
Intron Retention
Gene
ENSRNOG00000018790 | Kcnh4
Description
potassium voltage-gated channel subfamily H member 4 [Source:RGD Symbol;Acc:621415]
Coordinates
chr10:88665227-88667345:-
Coord C1 exon
chr10:88667172-88667345
Coord A exon
chr10:88665461-88667171
Coord C2 exon
chr10:88665227-88665460
Length
1711 bp
Sequences
Splice sites
5' ss Seq
CGCGTGAGT
5' ss Score
8.4
3' ss Seq
TTGACTTCTCCTTCCTGTAGACA
3' ss Score
10.19
Exon sequences
Seq C1 exon
GGCGCATGGGGCGCCCCGGCCCCGCCGGTAGCGCGCCCCCTCCGGCCAGGCCGCGCTGAACGCAGCCCGCGCAACGCCTCGAATTCGTACCCGGGGCCATGCCGGTCATGAAGGGGTTGCTGGCCCCGCAAAACACCTTTCTGGACACCATCGCCACTCGCTTTGACGGCACGC
Seq A exon
GTGAGTTGGGCCGAGGCGGGGTCAAGTCTCCTTGGGATAGGGTGAATATCTGGATGTGGTGAGATCAGAGGAGAGAGAATGAGGTGCTGGGTCTCCTAAAACCGTGGTAAAGAAACGGGGTGCAGAGCCCTTGAGAGTGGAAATCAAGACATGGAGCACGGGGGTTGGGGGGCAAGGTTAGGGGGTGTGACTCAAGGCAAAAGCGGCTCTTTGTGCCACAGACGGAGGAGGGGCCTTGGGAGCCACCCACTCCAGGGCAGAGCTGAGCTGGGAGTGTGTATAGAGGTATCTGAGGCGCGGAGATGGGACAAAGTGGTCTGGTGACTACAGCTACCTCTGCCCCAGAAAAGAGAGAGAACAGACTTCGGCAAGACCTAGTCTGCATTAAGGTCACGCGCCCCCAAGTCATGAGATAACCGTGTGTGAGGTGGGTGAGGCAAAGCGGGGGCAAGTACTTGAGACTGAGAAAACTCCCTGCTAGCCCACCTGAGCTTGGTTCCCAAGTTCAGCACCCTGGACAGCCGCACAGCTCCTTCCCGGCCTCTTCCTCCGCCATTCCCTCTCCTAACTCTGGAACCCCCAGGTCTTCCTTTGTCCCTCTTCGAAACCCTGGCCGGCATTAGGAGGGTGGGGGAGCGGTAGCCGAGGGCGGAAACCGAACCGCCAGGGCCCTACCCCCCCCAACCTCCCTTGTTTCCATAGCGCCAATCACCGAGGCAACGGGCCCTGGGATGGAAGAAGTAGGCTGTGCCCAGGACCCAGTGCTTCCTAGGAACCCTCAGTGTCCTGATCAGACACCCCATCCCCTAACAGAACCCTCTCCTAGGGTCCTTAGACTGTTTGTGTCTCCTATCCCATCGACTAAGCCTATCCCTGTATGTCCCCCCACCCTCAAGGCTCTAATCCGCCAATGCTAGAGGGAGCCAACTCAGGTTCTGGTGCTGGGGTGGCTGCAGCTCACACCTCAATGCCTCTTCAATTTGACTCTGAGCATAAGGAACGGATCCTTTGAAACTCCTTTAAAATATATATATATATCAAAAAGTCGGCATTTCCTGGAAGGCAAGAAAGAGGGATGTGTCTCCCAGAGTCTTTCCCTCACTTTTAAGGACATTTATGACTTTTGAAATTTTCTGCCTTTTGGTTTAACAATGAGAGCGTGTGATGTCATCAGAATCTTTGTCCTGCTCGTTAAAAGAGGATGCTGGGATTGTATCCAAGAATGCACTTCCAAAATTGAGTGAAAGGGGGTGTAGGGGGAGATCTTCTAAGTGCCCCCGGGCCTTCCTTCCCAAGTTACCTGATGCAACCCACATTCATGGGGGAAAGGCACATTGTGTCCCACTTTGCAGATAAGGAAGCTGAGGTCTTAAGCCACATTGTGTAGGTGGTAGAAGTGAGTGCTGGAGTCCCTGTCTTTGCCATTCTTTATGGCTTTCTGCAGTCACAGTTCCCCGGCTTGAAGCCATGTGGTTCCCACATGAACCACATGGGATTCCTTTTCTAGCCCTTCAGGTCTCTGGGCCACCCTTGAGTCCTTACCCTTTGGTTGTACACTTTGTCCTTATGAGAACATCTCAGAGGGAGATTAGGAACCACCCGGAAGCTTCTAGCTCTCTGATCTCTGTCCATGACTTGAGGGAACTGTTGTTCATTTAAAAGTTAGCTCCCCTCTTGACTTGGTCCTGACCTTGACTTCTCCTTCCTGTAG
Seq C2 exon
ACAGCAACTTTCTTCTGGCCAATGCCCAGGGCCCACGGGGTTTTCCCATCGTCTACTGCTCTGACGGCTTCTGTGAGCTCACAGGCTACGGCCGCACCGAGGTCATGCAGAAAACCTGTAGCTGCCGGTTCCTCTATGGCCCAGAGACCAGTGAGCCGGCCTTGCAACGGTTACAAAAAGCCCTGGAGGGCCACCAAGAACACAGAGCTGAAATCTGCTTTTACCGAAAGGATG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000018790:ENSRNOT00000025518:1
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion (1st CDS intron)
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.089
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF134261=PAS_9=PU(70.6=97.5)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Mouse
(mm9)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CAACGCCTCGAATTCGTACCC
R:
CCTTTCGGTAAAAGCAGATTTCAGC
Band lengths:
334-2045
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]