RnoINT0077752 @ rn6
Intron Retention
Gene
ENSRNOG00000018790 | Kcnh4
Description
potassium voltage-gated channel subfamily H member 4 [Source:RGD Symbol;Acc:621415]
Coordinates
chr10:88653427-88654252:-
Coord C1 exon
chr10:88654014-88654252
Coord A exon
chr10:88653466-88654013
Coord C2 exon
chr10:88653427-88653465
Length
548 bp
Sequences
Splice sites
5' ss Seq
AATGTATGT
5' ss Score
5.87
3' ss Seq
AATCCCCACTGTCTCCACAGGGC
3' ss Score
10.93
Exon sequences
Seq C1 exon
GAAAGGGGGACTTGATTGGGGCAGACATCCCTGAGTTGGGGCAGGAGCCTGGGGCAGGGGCAGGCTGCGTGCTGAAGACCAGCGCTGATGTGAAAGCACTGACTTACTGCGGCCTGCAGCAGCTGAGCAGCCGAGGGCTGGCCGAGGTCCTTCGGTTGTATCCGGAATATGTGGCTGCCTTCAGGGCTGGCCTACCCCGGGACCTAACCTTCAACCTGCGCCAAGGCTCTGAAAACAAT
Seq A exon
GTATGTTGACAATGTATGACTGCCACCCCCACCAAAGTACCTTCCTTCAAGACAGATATCCTCTTGGATCTCTCTCCTCCCTAAAAACATCACCTTTAACTCCAACTTCCTCCCTGTATTGCTTCATATACACTCTCTTCCTACCCCACTCTACTTGGGCCTCCCCCAGCCTCTGGACCACCTCTTAACAGCTTCCAACTATTAGTCAGTACCTCTCAGCCTTGTCTTATCTTTTTGAACAACCCCTTCTTTTAGATCTCTCTCTGAACCGGCACCAACCTCCCAACCCCTCACACCAAAGTTCCTCTCCTCTGCTGTCCCAATGGTCTGTTTTGGACTGTGTCTACACCTTAGGCCTTTGTCTTTTGCTACTTTGGGGTTCGATTGGTCATTCTGAACTCCTCTGAGTTGGGAGTTGGTGGTCTGGTTCGATTCCATAAAAAGGTCCCACATACTCAACCCCTTAACACTGTTCAGTAGAGTGGGGAGGGGCTGTACCAGAGGAGTGAAGAGCTAGGAGTCAGCTTGAATCCCCACTGTCTCCACAG
Seq C2 exon
GGCCTCGGCCGCTTCTCACGTTCTCCTCGACTCTCCCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000018790:ENSRNOT00000025518:11
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.025 A=NA C2=0.923
Domain overlap (PFAM):
C1:
PF0002724=cNMP_binding=PD(57.3=68.8)
A:
NA
C2:
NO
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:
GAAAGGGGGACTTGATTGGGG
R:
CTGGGAGAGTCGAGGAGAACG
Band lengths:
278-826
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]