MmuINT0085490 @ mm10
Intron Retention
Gene
ENSMUSG00000035355 | Kcnh4
Description
potassium voltage-gated channel, subfamily H (eag-related), member 4 [Source:MGI Symbol;Acc:MGI:2156184]
Coordinates
chr11:100746165-100746989:-
Coord C1 exon
chr11:100746745-100746989
Coord A exon
chr11:100746204-100746744
Coord C2 exon
chr11:100746165-100746203
Length
541 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
GGAAGGGGGACTTGATTGGGGCAGACATCCCTGAGTTGGGACAGGAGCCTGGGTCAGGGGCAGGCCCCAGCTGTGTGCTGAAGACCAGCGCCGATGTGAAAGCTCTGACTTACTGTGGCCTGCAGCAGCTGAGCAGCCGAGGGCTGGCGGAGGTCCTGCGGCTGTATCCGGAATATGCAGCTGCCTTCCGGGCTGGCCTACCCCGGGACCTAACCTTCAACCTGCGCCAAGGTTCTGAAAACAAT
Seq A exon
GTATGTAGACGACATATGGCTGCCACCCCCCACTGAGGTTCCTTCCTTCAGAACAGCTACCCTCTTACAGCTCTCTCCTCCCTAAAAACATCACCTTAACTCCAACTACCTCCTTCTATTGCTTCATATATACTATCTTCCCACTCCACTCCACTTGGGCCTCACCCAGCCAGCCCCTGGCCAATCTCTCACAGCCTTCTACTATTGCCTGGTACCTCTTAGCCTTGTCTTATCTTTATGAATGACCCCTTCTTTTAGGTCTCTTTCTGAAGTGATGCAACACACACCCCCCACCCCCACCACCATCAAAGTTCCTTTCCCCTGCTATTGTCCCAGTGGTTCCCACTCTTGTTTTAGGCTGATGTGATGTGATGACCTTAGGTCTTTTGCTACTTTGGGGCTCAGTTTGTCATTCTGAATTCCTCTGAGGTGGAGTAGGTGGTCCCATGTACTCAATCTCTTAACACTGTTCGCTAGAGGAGGGGCTGTATCAGAGGAGTGGAGAGATAGGAGTCAGCTTGAATCCCCACTGTCTCCACAG
Seq C2 exon
GGCCTCGGCCGCTTCTCACGGTCTCCTCGTCTCTCCCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000035355:ENSMUST00000107363:11
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.134 A=NA C2=1.000
Domain overlap (PFAM):
C1:
PF0002724=cNMP_binding=PD(58.2=69.5)
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GGAAGGGGGACTTGATTGGGG
R:
GAGACGAGGAGACCGTGAGAA
Band lengths:
278-819
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development
- Ribosome-engaged transcriptomes of neuronal types
- Neural differentiation time course
- Muscular differentiation time course
- Spermatogenesis cell types
- Reprogramming of fibroblasts to iPSCs
- Hematopoietic precursors and cell types