RnoINT0077757 @ rn6
Intron Retention
Gene
ENSRNOG00000018790 | Kcnh4
Description
potassium voltage-gated channel subfamily H member 4 [Source:RGD Symbol;Acc:621415]
Coordinates
chr10:88647575-88649560:-
Coord C1 exon
chr10:88648850-88649560
Coord A exon
chr10:88647796-88648849
Coord C2 exon
chr10:88647575-88647795
Length
1054 bp
Sequences
Splice sites
5' ss Seq
GAGGTAGGT
5' ss Score
9.65
3' ss Seq
CTGTTTCTGTCTCTCTACAGGCT
3' ss Score
13.55
Exon sequences
Seq C1 exon
ATTTCCAGACTCAACCAGGAAGTGTCTCAGCTGAGCCGGGAGCTTCGCCAAGTGATGGGCCTCTTACAGGCCAGGCTGGGTCCCCCAAGTCACCCACCTGACTCCACTTGGCTCCCAGACCTTCCTTGTCCCCATCAGAGACCGCCATGCATCTCTCCTCATATGTCTGGACCTCCACCTGGTCTCCAGAATACTACACTTGCTGTAGTCCACTGTCCAGCCAGTGTTGGGACAGTGGAGATAGGGGCCACCCCCTCAGAGCTGAGGTCTTCCATGGTGCCACCCTTTCCCTCAGAACCTGATCCTCTTGGACCCTCTCCAGTGCCAGAGGCTTCTCCTCTGACCCCAAGCCTCCTGAAGCACAGCTTCCAGTCTGGGTCAGACACATTCCACTGACCCTGGCCTTGGGCCCAGGCCTGTCTGGGGTGGGCTTAATTACCTGCCATCCAGGGAGGAGCTGGGCTCCTTGGCCTCTTGCCTTGGGGTCAGCAGCTGCCAGCTGGTCTGGTTGGCTCTGGATTCTCTGGACTTTTTAACAATGAGTGGCCACATCTAACCCCGTTCCATTTTCTAAACCATCCCCCCCACCCGTCCTACTCTTGTGGGAGGGGAGTCACCTGAAGCCGTGGAATCCAGCAGGCATGAAATGGACCATGGTGCCTTGTTGGGCTACGCAGAGGAGATGTCTTACTTTCTCCCCACGACTTGGAG
Seq A exon
GTAGGTATAAGCTGGGGACAGAAGAATGGTCAAGAGCAAGGATCTAACTTAGTAAATGAAGGCTGGGGTTAGACGAGGCAGGGTGTAGAGGAGAGGGCTAGATGGTATTACAGTATTACGGAGCTCTTCTGTCCCAGATTCTGGGTCCTTTGCAGAGGACCCTGAGAACAATGTCACCTTGAGGGGAGTGAGTTTGAGATTCTGTCATCTGAGAACCCTAGTACATTTTAGGCCTCCTACTAGCAGCCAAACTGAAGGAGTTCACTTCACCCCAGGGCACACACAGAAACAAACTGATGGCTCCAGATGTGTCTTTGGCTCTCAGAACACTTTTTTTCTTCTTCAAAATTATTAACATCAAACTCCAGATAGAGCCACAAAATATTCAGTATTCTAACTTCTCAAGAAAACCAAACCAAACCAAACCAAACCAAACCAAACCAAACCAAACCAAACCAAAGATGTCTGGATACCAAGAGACAATATTCATCTGGCAAAAATCAGTAATCCTTAGTCGAAGGTGGCTAAAGAAATAGTCTCTATTTCTTCAGTCTCCTGCTTGTTGATCATTTCGTTTTCTTTTTTTTTTTTTTTTTTTTTTTTTTCTTTTTTTCGGAGCTGGGGACCGAACCCAGGGCCTTGTGCTTGCTAGGCAAGCACTCTACCACTGAGCTAAATCCCCAACCCCTCGTTTTCTTTTTTTTTTTTTTAAGGTTTATTTATTTATTATAGATAAGTACACTGTAGCTATCTTCAGACACACCAGCAGAGGGCATCAGATCTCATTACAGATGGTTGTGAGCCACCATGTGGTTGCTGGGATTTGAACTGAGGACCTCTGGAAGGGCAGTCAGTGCTCTTAACCGCTGAGCCATCTCTCCAGCCCCTTGTTGATCATTTCTTGATGGCCAAATTGGCTTCTCTTATTTGTTTGGTCTTTGTGTTTTTTTCAGTTCGCAATCCCTGTCTTAGAGTGGGCTCCAAGGGGGTCCTAATAATGTCTGTTCGTACTCTTGACTCGGGCCTGTCAACATCTGTTTCTGTCTCTCTACAG
Seq C2 exon
GCTGTCATGCAAGGTGGTCCCTTCTGCTGCCAGCAGCTCAAAGCATTCTAGCTTTACCCTTCTGCAGTTCCCACCTCCAAACATCAGTCATATCTGCCCCCCTCCCTCCCAACATGGTCTCGACCTCAATGAGGATCTGGGCAACTCACAAACCCTCTCTGGTTTCCAGCTCCCCTTTCTCACTAAACACCCCAGGCTCACTTTTGGATAGAAAATAAATC
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000018790:ENSRNOT00000025518:16
Average complexity
IR
Mappability confidence:
NA
Protein Impact
3' UTR
No structure available
Features
Disorder rate (Iupred):
C1=0.931 A=NA C2=NA
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NA
Main Inclusion Isoform:
NA
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Mouse
(mm9)
No conservation detected
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GGTTGGCTCTGGATTCTCTGG
R:
TGTGAGTTGCCCAGATCCTCA
Band lengths:
355-1409
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]