MmuINT0085502 @ mm10
Intron Retention
Gene
ENSMUSG00000035355 | Kcnh4
Description
potassium voltage-gated channel, subfamily H (eag-related), member 4 [Source:MGI Symbol;Acc:MGI:2156184]
Coordinates
chr11:100749609-100750426:-
Coord C1 exon
chr11:100750232-100750426
Coord A exon
chr11:100749809-100750231
Coord C2 exon
chr11:100749609-100749808
Length
423 bp
Sequences
Splice sites
5' ss Seq
GCGGTGAGG
5' ss Score
7.93
3' ss Seq
CTGGGTTGCCACCTCTGTAGCGC
3' ss Score
4.4
Exon sequences
Seq C1 exon
GTTGGTTGCATGAGCTGGGCAAGCGGTTGGAGGAGCCTTATGTCAATGGCTCGGCAGGTGGACCATCTCGGCGCAGTGCCTACATCGCTGCGCTGTACTTCACGCTGAGCAGCCTCACCAGTGTAGGCTTCGGCAACGTGTGTGCCAACACAGACGCTGAGAAGATCTTCTCCATCTGCACGATGCTCATAGGCG
Seq A exon
GTGAGGCCAGACCCACTATTTGCGGGGAGCCTGTGAATCCGGGCTTGTGCACAGGGAGATAAGGCTCAGAGAAAGGAAGGTGCCCACCCAAGTCCACACAGTCACGTGTTCATTCATATTCGCTGCCCATGACTGTGCCCATCAACAGTTGTGATCTCTTTCAAGGAGTAAAAATACCCAAGGTCATGGCCAAGCGGGTGATGAGAGAGGAGTTTGGGTGTGCCCCATCTAAGGATTGCCACCTACTTCCCCTGCTTCGATTGCTAGTTGTACTCACAGGAAAGCTAGCGGGCTCCTGTGCTAGCTCTCCTGTGCTCCCCCAGAACCTCTGAGACGCCCCTATCCAAGGCAGGGTGATTCGGGGAGCACAAGGAGCAAATGTGCGGTGAGCGCCTCTGATCCTCTGGGTTGCCACCTCTGTAG
Seq C2 exon
CGCTGATGCACGCAGTGGTGTTTGGGAATGTCACAGCCATCATCCAGCGCATGTACTCCCGACGCTCGCTCTACCACAGCCGCATGAAGGATCTCAAGGACTTCATCCGAGTGCATCGCCTGCCCCGCCCACTCAAGCAGCGCATGCTCGAGTACTTCCAGACGACGTGGGCAGTCAACAGCGGCATCGATGCCAACGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000035355:ENSMUST00000107363:8
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=FE(31.0=100)
A:
NA
C2:
PF0052026=Ion_trans=PD(4.8=14.9)
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:
AAGCGGTTGGAGGAGCCTTAT
R:
ACGTCGTCTGGAAGTACTCGA
Band lengths:
343-766
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