RnoINT0077765 @ rn6
Intron Retention
Gene
ENSRNOG00000018790 | Kcnh4
Description
potassium voltage-gated channel subfamily H member 4 [Source:RGD Symbol;Acc:621415]
Coordinates
chr10:88654813-88656864:-
Coord C1 exon
chr10:88656665-88656864
Coord A exon
chr10:88655063-88656664
Coord C2 exon
chr10:88654813-88655062
Length
1602 bp
Sequences
Splice sites
5' ss Seq
GAGGTAGTG
5' ss Score
4.58
3' ss Seq
ACCTCTGCCTCTTATGACAGTTA
3' ss Score
8.36
Exon sequences
Seq C1 exon
CGCTGATGCACGCGGTGGTGTTTGGGAATGTCACAGCCATCATCCAGCGCATGTACTCCCGACGCTCGCTCTACCACAGCCGCATGAAGGATCTCAAGGACTTCATCCGAGTGCATCGTCTGCCCCGCCCACTCAAGCAGCGCATGCTCGAGTACTTCCAGACTACATGGGCCGTCAACAGCGGCATCGATGCCAACGAG
Seq A exon
GTAGTGCTGAGCAGGGGTTCCTGCCACGTGGAGGTGCAGTAGGGAAGGGGTACTGCCTCTCCAGGATGGGAACAGAGGCAACCAGGGTATAATGAGGCACGGGGCTCTCAGCAAGGATGTGCACCCAGACAAATCCAAATCCCTTTCTTTGGTCCTTAAACATGGAGGTTGAAAGGGAGCAGAATGCTCGAGTCTGGACTTGAGTGGACATCTTGCCTTCTCCGGGCCTCAGTTTCTCTGTCATGGTAGGCTTCACAGGTTTCCCCCAGTACTAGCGTGGGCCAAGCCATCCCTTTCCATTCATTCTTATGTACTGAATGGGACAGTAGCTAGAAATGGTTACAGGCAGCCTCAGCTCTAAAGGGGACCCCAAGAAATGTGGGAGAGTGAAACCCGTACAGAGAAACACATAGCAAATGGAACCATCCAGGAGTGAGTTCCTGCAGGAGGGCCCTTATTGTGTCTGAGTCCAGAGGGGACAAGGAAGGTGTTAGAGAAAGGGATACATCACAGTCAAGAGAATCAGTCTGTCATGAGACCATTCCAGGCCCCCCCAAAAAAAAAAAAAAGTGAGCTCTGGAGAAGGGTTGTGTCAGTGCCAGAGTCAGGGCTGGGCCAATGCAGTCCCAAGAGCAGATAGCCTTGAGTTTGCAGTTTTGTCCTGTCAGATCTCTAAGAAAGGGTATGGCAGAGGGTGGAGGAAGAAGTGCATGGGAAGCATCTGCCAGGAAAGGATCCACAAGAGCAGGCAAATTCTAGTTGGTTGCAAGAGAGCTACCCTGGTCTGGCTTGAGTGGGTCCAGGGATGAGATGAAGGCACCTAGGAGGAAGACGGAGCTTAGGGATGGAGGGGAGCGTCCAGGGTGAGCCATCAGGAGATGTGCTGCCTATGGGAGACTTAGGTGTCCATCAGGGAGTTGTAAATATACATTGAACCGAACGTTGGGGCTTCCAGGCCTGAGTAGTGGGGAAGAGGGGCGCTGGTTACCATGATGTGGGGAGGATGCAGAAGTGAGAAGTGACTGAGGGGATTGGCTATGCAGGGAGGCTGGGGGAGGAATCACCAGAGATTAGGGAGCAGAACCGGGAGGGAGCCTCTTCCAGGGACCCAGGCGGAAGAAGGAAGAGATCGGCAAGACAGAGTTGCCGAGGGGCTCCATGGTTCTATGAGGGAAATGTGGAGAGCCCTGGTAACGTTCAAGACCTTGCCTGAGCCTGCAGTTTACAGATAGGGATACTGAGGCCCAGAGACGAGAAAGGGAGGGTTCCTACTTTCCCAGTTCCCAGCTGAAGTCTGACCCACCAAGGATGACTCTTCACTGTATAGAATTGAGCAACCAGAATCTAGGAATGTTGAGCATGTGCAGTCATGTGCGGTACCCAGAGGGCAGACTTGGTCTCTGCCCGGAAGTTAGATTTGGTTGGCGATCCACAGAGTAAGGAAAATTGAGACCAGACAAGAAATCTCCCTAAGGTCCAGCGGGTAATTTTAAAGAGAGGGCAAGTTGGCACCCTTGCCCTTGGGGACAGCCCAATTCATTTGTAGAGTTGAGTATCGACTGCCAAGGGGATGGCCAGAATAACCTCTGCCTCTTATGACAG
Seq C2 exon
TTACTGCGTGACTTCCCGGATGAGCTGCGAGCTGACATCGCCATGCACCTGAATCGGGAGATCCTGCAGCTGCCTTTGTTTGGAGCAGCAAGCAGGGGCTGCCTTCGTGCCCTCTCCCTGCACATCAAGACCTCATTTTGTGCTCCTGGGGAGTTCCTGCTACGCCGTGGGGATGCCCTGCAGGCACACTACTATGTCTGCTCTGGCTCTCTTGAGGTGCTCCGAGACAACACGGTGCTGGCCATCCTTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000018790:ENSRNOT00000025518:9
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0052026=Ion_trans=PD(4.8=14.9)
A:
NA
C2:
PF0002724=cNMP_binding=PU(41.7=47.6)
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:
CTCTACCACAGCCGCATGAAG
R:
TCAAGAGAGCCAGAGCAGACA
Band lengths:
347-1949
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]