RnoINT0077760 @ rn6
Intron Retention
Gene
ENSRNOG00000018790 | Kcnh4
Description
potassium voltage-gated channel subfamily H member 4 [Source:RGD Symbol;Acc:621415]
Coordinates
chr10:88663399-88664677:-
Coord C1 exon
chr10:88664550-88664677
Coord A exon
chr10:88663643-88664549
Coord C2 exon
chr10:88663399-88663642
Length
907 bp
Sequences
Splice sites
5' ss Seq
AGTGTGAGT
5' ss Score
6.96
3' ss Seq
CCGCTACCCTCTCCCTTTAGAAC
3' ss Score
10.38
Exon sequences
Seq C1 exon
AAAACTCCCTTGGGAGGAGAGGAGCTAGCTCAAGACTTAGGTCCACGAGGAGGCAGAACCGGACAGTTCTACACCGGTTGACTGGCCACTTTGGTCGCCGGGACCAGGGAAGCGTGAAAGCCAATAGT
Seq A exon
GTGAGTTCCACTCCTCCCCCCACACACACACTGATATTCCTCGGTCCTCCAGCTTTAATTCCTTGCTACCTTCTCCCTCTTTCCTGTCCGTTCAATCTCCCTCCGTTGGCTTGTCCCTCTGCCCACCCATTTTCCACATGCAAGTTTCTGCTTCATCGCAAGCGTCCCCACTTCCTTTTCTTCAGTAGGCAATTGACGTTCTGGTAACGACATCACAGAGGGTGGGGCTCTAGCAGTAATCCTTCCCCTGAATGTAAGGGTTGTATCATGAGGGATGAACTCACAAGCTGCTGTGATCCTAGAATCCCACCCTGGGTGCCACCCGCAAGGTTCCTGACCAAGCCAGGCAATGAGTCCCCCACCTGCTTCTATAGTCTGTTACAGGGCAAAGGAATTGGGTCAACAGAGTTTACTTCCTCCCTGTGAGGGCATGCTCACCCCCTCACTAGCTCCCTAAAACTCAGAAAGAACTACAAAGAATTTATGGCCCTAAGAATGGTCTGATTGTCATCTGACAATCTTCAAGCAAGATGAGGGACAGTCCATGCCAATATTGCTGATAAGGCAAGATTTCTTTAGAAGCTGCCTGAGGGTGTTCTGTGGGGAGTGATAGAGTGATTGAGTGATAGAGTGCCTGCCTCAAAAGTACACAGCCTCTGGGTTAGGTCCCCAGCACCAGAAAGGGAAAAGAAGGAGTAAAGAGAACTACGAAAGAGAAACCTGAGCTATAACATGGTACAGATGCTGACCTGAGAATTCCCTGCCCCAAACCCCATATCTTCTCTCTCTTTTCTGGTTACCCGTCCAATACCAACCGTCCCCTTCCCCCTATCCCCAGACTCTCCCTTCCCTCAGCCTCAACTTTTCTTTCCCCTAAGTGTCCCTAACCGCTACCCTCTCCCTTTAG
Seq C2 exon
AACGTGTTTGAGCCAAAGCCATCAGTGCCTGAGTACAAAGTGGCCTCCGTGGGGGGCTCCCGCTGCCTGCTCCTCCACTACAGCATCCCCAAGGCTGTCTGGGACGGTCTCATCCTTCTCGCTACGTTCTACGTCGCGGTCACCGTCCCTTACAACGTCTGCTTCGCTGGTGATGACGACACCCCCATCACGTCCCGACACACCCTTGTCAGTGACATCGCTGTGGAGATGCTCTTCATCCTGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000018790:ENSRNOT00000025518:4
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.395 A=NA C2=0.012
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF0052026=Ion_trans=PU(5.7=14.6)
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:
AAACTCCCTTGGGAGGAGAGG
R:
CTCCACAGCGATGTCACTGAC
Band lengths:
355-1262
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]