MmuINT0085503 @ mm9
Intron Retention
Gene
ENSMUSG00000035355 | Kcnh4
Description
potassium voltage-gated channel, subfamily H (eag-related), member 4 [Source:MGI Symbol;Acc:MGI:2156184]
Coordinates
chr11:100608877-100611122:-
Coord C1 exon
chr11:100610923-100611122
Coord A exon
chr11:100609127-100610922
Coord C2 exon
chr11:100608877-100609126
Length
1796 bp
Sequences
Splice sites
5' ss Seq
GAGGTAGCG
5' ss Score
5.65
3' ss Seq
ACCTCCGCCTCTTCTGACAGTTA
3' ss Score
9.94
Exon sequences
Seq C1 exon
CGCTGATGCACGCAGTGGTGTTTGGGAATGTCACAGCCATCATCCAGCGCATGTACTCCCGACGCTCGCTCTACCACAGCCGCATGAAGGATCTCAAGGACTTCATCCGAGTGCATCGCCTGCCCCGCCCACTCAAGCAGCGCATGCTCGAGTACTTCCAGACGACGTGGGCAGTCAACAGCGGCATCGATGCCAACGAG
Seq A exon
GTAGCGCTGAGCAGGGGCTCCTGCCACGGTGGCGGTGCAGTAGGGAAGGGCTAGTGCCTCTCCAGGCGTGGAACAGAGGCAACCGGGTTGTAAGGAGGCACAGGGCTCTCAGCAAGGACGAACACCCAGCCAAATCCAAATCCCTCTCTTTGGTGCTTGAACGTGGAGGTTGAAAGGAAGCAGAAATGCTTGAGTCTGGACTTGAGTGGACACCTTGCCTTCTCTGGGCCTCAGTTTCTCCGTTGTGGTAGTCTTCACCGTTTCCCCCAGTACTAGAGTGAGTTAAGCCATCCTTCTCTGCTCGCTCTTATGTACTGATCCCAGTGGAGAATGGGGCAGTAGCTAGAGATGATTATAGGCAGCCTCGGCCCTAAAGGAGACCCCAAGAGAAGTGGGAGAGGGAGCCCGGTATAGAGAAACACGTAATGATTGGAACCATGCAGGAGTGAGTTCCTGAAGTAGGGCCCTCATTGTGTCTGAGCCCAGAGGGACAAGGAAGATGGCAGAGGGGACAAGGAAGATGGTCAAGAGAATCAGTCTACCATAAGACCATTCCAGGCTAAAAAAAAAAAAAAAAAAAAAAAAGAAGAAGAAGAAGAAGAAGAAGAAGAAGCAACCTAGGTTCCTGAGTGCTGGTAAAGTAGAGCAAACGAGCTCAAGGATATGAAAGTAGTAAAGTGAGCTCCAGAGAGCGGAGGCTGTGCTGGGAGGGGTGCAGTGCCAGAGTTGGTGCTCAGCAGCTGCAGCCCCAAGAGCAGATAGCCTTGAGTTTGCAGTTTTATCCTGTCAGATCTCTAAGAACGGGTGCGTCAAAGAGGGTGGAGGAGGAAGCAGATGGGAAGCATTTGCCAGGAAAGGATCCACAAGAGCAGGCAAGTTCTAGTTGGTTGCAAGAGAGCAGCTCACAGTGCTACCCTGGTCTGGCTTGGGGTCAAGGGATGAGATGAAGGCACCTAGGAGGAAAACTGAGCCTAGGGATGAAGGGGAGTGTCCAGGGCTAAGCCATCAGGCGATGCATTGTCCATCAGGTAGTTAGTTGTAGATATACACGTGAATGCAATGTTAGGGCTTTCAGGCATGAATGGTGGGGAAGAGAGGGTCTGGTTACCATGATGTGGCAGGTGGGAAGATGTAGACATGAGAAGTGAGTGAGGGGATTGGCTATTCAAGAAGGCTGGGGAAGGAATGAGGAAGGAACGCTAGAAATGAGGGAGCAAAACTGAGAGGGAGTCCCTTCCAGGGGCCCAGGGGGAACAAGGAAGAGATCAGCAAGACAGAGTTGCCGAGGGGCTCTGTGGTTTTATGAGGGAAATGTATCTCCATTGGTAACATTCAAGACCTAGCACGAGTCTGCATTTTACAGATAGGGATACTGAGGCCCAGAGGTGAAAAAAAAAAAGGTTCCAAAGCCCCCAGAAACATAGGAACAAAGGTGATTGGTTGCTACTTTGCCAATTCCCAGTTGAGGTCTGACCCACCACAGATTACTCCTGACTGTATAGAATTGAACACCACGGATGACTCCTGACTGTATAGAACTGACTGTATAGAATTGAGCCATCAGAATCTATGAGCTGCTCAGTGTGTGCAACTACATGCGGTACCAGCAGTTAGATTTGGTGATCAACATAGTAAGGGAAATTGAGGCTAGGCAAGGAGTCTCCCTAAGGTCCAGTGAGTAATTTCAAAGAGAAGGCAAGTTGGCACCCTTGCCTTGGGGACAGCCCAACTCTTTTGTAGACTTGAGCAGTGACTGGCAAGGGGGTGGTCAGAGTAACCTCCGCCTCTTCTGACAG
Seq C2 exon
TTACTGCGTGACTTCCCGGATGAGCTGCGTGCTGACATTGCTATGCACCTGAACAGGGAGATCCTGCAGCTGCCTCTGTTTGGAGCGGCTAGCAGGGGCTGCCTGCGGGCCCTCTCCTTGCACATCAAGACCTCCTTCTGTGCTCCTGGGGAGTACCTGTTACGCCGTGGGGATGCCCTCCAGGCACACTACTACGTCTGCTCTGGCTCGCTTGAGGTGCTCCGGGACAACATGGTGCTGGCCATCCTGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000035355-Kcnh4:NM_001081194:9
Average complexity
IR-S
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(40.8=47.6)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Rat
(rn6)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CTCTACCACAGCCGCATGAAG
R:
CGAGCCAGAGCAGACGTAGTA
Band lengths:
342-2138
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development
- Muscular differentiation time course
- Spermatogenesis cell types
- Reprogramming of fibroblasts to iPSCs
- Hematopoietic precursors and cell types
Other AS DBs: