RnoINT0077758 @ rn6
Intron Retention
Gene
ENSRNOG00000018790 | Kcnh4
Description
potassium voltage-gated channel subfamily H member 4 [Source:RGD Symbol;Acc:621415]
Coordinates
chr10:88664773-88665460:-
Coord C1 exon
chr10:88665227-88665460
Coord A exon
chr10:88664920-88665226
Coord C2 exon
chr10:88664773-88664919
Length
307 bp
Sequences
Splice sites
5' ss Seq
ATGGTAAAG
5' ss Score
5.39
3' ss Seq
CCTTCTCTCTGTGTCCACAGGCT
3' ss Score
12.61
Exon sequences
Seq C1 exon
ACAGCAACTTTCTTCTGGCCAATGCCCAGGGCCCACGGGGTTTTCCCATCGTCTACTGCTCTGACGGCTTCTGTGAGCTCACAGGCTACGGCCGCACCGAGGTCATGCAGAAAACCTGTAGCTGCCGGTTCCTCTATGGCCCAGAGACCAGTGAGCCGGCCTTGCAACGGTTACAAAAAGCCCTGGAGGGCCACCAAGAACACAGAGCTGAAATCTGCTTTTACCGAAAGGATG
Seq A exon
GTAAAGAGCCCAACTTGGCTTGCCTGACATCTGCCCAAATCCCAGGGCTTCCCTCAGCAGAGTCTGCTAGGCACAGAGATGCTGATGGGCCTATCTTTCCATGGCCACAAGCTGCCTGTAGGACTAAGATCCTTTCTGGGTCTTGGTCTCTCCATTTGTAATGTGAAAGAACCAGATGACAGTTCTCTGGGGGTATCCCCCAGCTCTAAACCTTCACCAAAGCCTTTGACTAATTTGAGAAACCGAGGAGAATCAAAGGGTTGCCCAGGGATGCTCATGTACCTCTGCCTTCTCTCTGTGTCCACAG
Seq C2 exon
GCTCGGCCTTTTGGTGTCTTCTGGACATGATGCCCATCAAAAATGAGATGGGAGAGGTTGTGCTTTTCCTATTTTCCTTTAAGGACATCTCTCAGAGTGGAGGCCCAGGACTTGGCTCACCAGGGATCCATGGGGACAATAATCATG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000018790:ENSRNOT00000025518:2
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.089 A=NA C2=0.260
Domain overlap (PFAM):
C1:
PF134261=PAS_9=PU(70.6=97.5)
A:
NA
C2:
PF134261=PAS_9=PD(28.4=62.0)
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:
ACAGCAACTTTCTTCTGGCCA
R:
CTGGGCCTCCACTCTGAGAG
Band lengths:
342-649
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]