MmuINT0085495 @ mm10
Intron Retention
Gene
ENSMUSG00000035355 | Kcnh4
Description
potassium voltage-gated channel, subfamily H (eag-related), member 4 [Source:MGI Symbol;Acc:MGI:2156184]
Coordinates
chr11:100740382-100741998:-
Coord C1 exon
chr11:100741289-100741998
Coord A exon
chr11:100740622-100741288
Coord C2 exon
chr11:100740382-100740621
Length
667 bp
Sequences
Splice sites
5' ss Seq
TAGGTATGG
5' ss Score
7.37
3' ss Seq
CTGTTTCTGTCTCTCTACAGGCT
3' ss Score
13.55
Exon sequences
Seq C1 exon
ATCTCCCGTCTCAATCAGGAAGTGTCTCAGCTGAGCCGGGAGCTGCGGCAAGTGATGGGTCTCTTACAGGCCAGGCTGGGACCCCCAAGTCACACAGCTGGTCCAGCTTGGCTCCCAGACCTTCCTTGCCCCCACCAGAGACTACCATGCATCTCTCCTCATATGTCTGGACCACCACCTGGTCTCCAGAATACTACACTCGCTGTAGTCCACTGTCCAGCCAGTGTTGGGACAGTGGAGATAGGGGCCACCCCCTCAGAGCTGAGACCTTCCACGATACCACCCTATCCCTCGGAACCTGATCCTCTGGGACCCTCTCCAGCGCCAGAGGCTCCTCCCCTGACCCCAAGCCTCCTGAAGCACAGCTTCCAGTCTGGGTCAGACACATTCCACTGACCCTGGCCTTGGGCCTAGGCCTGTCTGGGGTAGGCTTTACCACCTGCCATCCAGGGAGGCGCTGGGCTCCTTGGCCTCTTGCCTTGGGGTCAGCAGCTGCCAGCTGGACTGGTTGGCTCTGGATTCTCTGGACTTTTTAAACAACGAATGGCCACATCTAACCCCGTTCCATTTTCTAAACCATCCCCCATCCTCCTCTTCTGGGAGGGGAGTCACTTGAAGCCATGGAATCCAGCAGGCATGAAATGGACCATGGCGCCCTGTTGGGCTACGCAGAGGAGATGTCTTACTTTCTCCCGAAGACTTGGAGGTAG
Seq A exon
GTATGGACTGGGAACAGAAGAATGGTCAAGAGCAAAGGTCTAACCTAGTAAAGGAAGGCTTGAGGTTAGACCAGGCAGGGTCTAGAGTGAGAGGGCTAGATGACATTATAGTACTATGGAGCTCTTCTGTCCCAGATTCTGAGTCCTTTGCAGAGGATCCTGAGAATAATGTCACCTTGAGGAGAGTGAGTTTGAGATTCTAGCCATCATTTGAGAAGCCCAGGACATCTTAGGCCTCCTGCCAGCAGCCAAGCTGAAGGAGTTCACTTCACCCCATGGCACACACAAAAAACAACTGAGAGCTCCAGATGTGTCTTTGGCTCTCAGAACACTTCTTTTCTTCTTCAAACTCTGAGTTAGTTACCAGCATCGAACTCCAGATAGAACCACAAAATATTCAGTATTCTAACTTCTCAAGAAAAAAAAAAAAAAAGACAACAATGTCTGGCTATCAAGAGCCAACATTCATCTGAAATAGTCCCCATTTCTTCAGTCTCCTGCTTGTTGATCATTTCTTAATGTCCAATTGGCTTGCCTTATTTGTTTGGTCCCTCTGTTTTCTTCAGTTTGCAATCCCTGTCTTAGAGTGGGCGCCAAGGGGGTCCTAATAATGTCTGTTCGTACTCTTGACTTGGGCCTGTCAACATCTGTTTCTGTCTCTCTACAG
Seq C2 exon
GCTGTCATGCAAGGTGGTTCCTTCTGCTGTCAGCAGCTCAAAGCATTCTAGCATTACCCTTCTGCAGGTCCCACCTCCCAACATCAGCCAAACCTGCATCCCCTCCCTCCCAACATGGTCTCAACCTCAGGGAGGGTCTGGGCAACTCCCAAGCCCTCTCTGGTTTCCAGCCCTCCTTTCTCACTCAATGCCCCACCCAGGCGCACTTTTGGATAAAAAAAAAATAAATCCATATATTTT
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000035355:ENSMUST00000107363:16
Average complexity
IR
Mappability confidence:
NA
Protein Impact
3' UTR
No structure available
Features
Disorder rate (Iupred):
C1=0.885 A=NA C2=NA
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NA
Main Inclusion Isoform:
NA
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GAATGGCCACATCTAACCCCG
R:
GAGTGAGAAAGGAGGGCTGGA
Band lengths:
355-1022
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