MmuINT0085489 @ mm9
Intron Retention
Gene
ENSMUSG00000035355 | Kcnh4
Description
potassium voltage-gated channel, subfamily H (eag-related), member 4 [Source:MGI Symbol;Acc:MGI:2156184]
Coordinates
chr11:100608059-100609126:-
Coord C1 exon
chr11:100608877-100609126
Coord A exon
chr11:100608304-100608876
Coord C2 exon
chr11:100608059-100608303
Length
573 bp
Sequences
Splice sites
5' ss Seq
TGGGTGAGA
5' ss Score
6.04
3' ss Seq
TCCCTTTCCTCTACCCACAGGGA
3' ss Score
12
Exon sequences
Seq C1 exon
TTACTGCGTGACTTCCCGGATGAGCTGCGTGCTGACATTGCTATGCACCTGAACAGGGAGATCCTGCAGCTGCCTCTGTTTGGAGCGGCTAGCAGGGGCTGCCTGCGGGCCCTCTCCTTGCACATCAAGACCTCCTTCTGTGCTCCTGGGGAGTACCTGTTACGCCGTGGGGATGCCCTCCAGGCACACTACTACGTCTGCTCTGGCTCGCTTGAGGTGCTCCGGGACAACATGGTGCTGGCCATCCTGG
Seq A exon
GTGAGAACCCCCCCTACCTCACACTGTCCATCCTAAGATCTTCTCCGGAGGCCTTGGGGGATAGCCTGGGGTTCTGGGGGTGGGAGACCTCTAACTAGTACCTAGAATGCCTACTGAGTATTCTTCCTTAATCCTTTCAGTTCCCCCTAGGCCCTTCCTCCCGCTCTGCCCTGTTTGGCCACCCTTTAACCCACGGGCCCTCCATCAGTGGCTGTCATTCACTCCAACGCCTCCTTTTCTATTGCATCATCTTCCAGTTCCATTGACCTGTCCCCAAACGACTCTAAAACCTGTTGGCCTTTACTGTTCAACTGACCCCTCTGACCATTCTTTATTGATCATCCAATTCTATTGGTCGTTTCTCCAGCACTATAGACATCTTCCACTGGCTGCTGCCCAGCCTCACCTACCACTCTCCATAGGCCTCTTACAAGTTCCCTGACTCCCTCTTCCAATGCACTAACTCCCTTCAACCATCCTTAAGTACTCTGACCATCATCTCTCAGATGTATGGACCATCTCCTACCGATATTCCCTTCATCCCAGTTGACTGTCCCTTTCCTCTACCCACAG
Seq C2 exon
GGAAGGGGGACTTGATTGGGGCAGACATCCCTGAGTTGGGACAGGAGCCTGGGTCAGGGGCAGGCCCCAGCTGTGTGCTGAAGACCAGCGCCGATGTGAAAGCTCTGACTTACTGTGGCCTGCAGCAGCTGAGCAGCCGAGGGCTGGCGGAGGTCCTGCGGCTGTATCCGGAATATGCAGCTGCCTTCCGGGCTGGCCTACCCCGGGACCTAACCTTCAACCTGCGCCAAGGTTCTGAAAACAAT
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000035355-Kcnh4:NM_001081194:10
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=0.134
Domain overlap (PFAM):
C1:
PF0002724=cNMP_binding=PU(40.8=47.6)
A:
NA
C2:
PF0002724=cNMP_binding=PD(58.2=69.5)
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:
AGACCTCCTTCTGTGCTCCTG
R:
CGCAGGTTGAAGGTTAGGTCC
Band lengths:
349-922
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: