MmuINT0085498 @ mm9
Intron Retention
Gene
ENSMUSG00000035355 | Kcnh4
Description
potassium voltage-gated channel, subfamily H (eag-related), member 4 [Source:MGI Symbol;Acc:MGI:2156184]
Coordinates
chr11:100616984-100618301:-
Coord C1 exon
chr11:100618174-100618301
Coord A exon
chr11:100617228-100618173
Coord C2 exon
chr11:100616984-100617227
Length
946 bp
Sequences
Splice sites
5' ss Seq
AGTGTGAGT
5' ss Score
6.96
3' ss Seq
CACTACCCCTCTCCCTTTAGAAC
3' ss Score
9.89
Exon sequences
Seq C1 exon
AAAACTCTCTTGGGAGGAGAGGAACTAGCTCAAGACTTAGGTCCACGAAGAGGCAGAACCGGACTGTCCTACACCGGTTGACTGGCCACTTTGGTCGCCGGGGCCAGAGCAGTGTGAAGGCCAACAGT
Seq A exon
GTGAGTTCCATCCCCGATGGCGATTCTCATATCCTCCAACCTTACTTCCCTGTTGGTTCATTCTCCCTCTGCTGGCTTGCTCCTCTACTCGCCCATTTCCCACATACTACTTTCTGCTTCATCATGTGTGCCCCCTACCAATCCCTCCTTTTCTTCAGTAGGTGATTGACAGTGCCCCCTACCAATCCCTTCTTCGGTAGGTGATTGACATTGCTCTGGTGATGTCACAGGGGGTGGGGCTCTAGCAGTAATCCTCCCGATCCCTCCTTCCCGGCCCCCTTCCCAGGGTAAAGGCTGTATCATAAGGGATGAACTCACAAGCTGCTGTGGTCCTAGGAAGAAAGCCCCTATTGTGGACCTAGCATCCCTTCCAAGGTTCCTGACCAAACCAGGTGATGAGTCCCCCATCTGCTTCTCAAGTCTGTTATAGGCCATAGGAATTGGGTCAGCAGAGCTAACTTCCTCCCTGTGAGGGCATGCTCATCCCTCACTAGGTCCCTAGAACTCAGAAAGCACTACAAAGAAGTTATGAGCCTTCATCAGCCGATCTTCAAGTAGGGCGAGAGGCAAGAGTCAGTCCATGTAAATGCTGCTGATAAAGCACGATTTCTTTAGAAGCCACCTGAGGGTGTTTTGTGGAGATTTAATTGAGTGATAGAGTGCCTGCCTCAAAACACAGCCTCTGGGTTAGGTCCCCAGCATAAGAAAAGGAAAAGAAGAAAAGGTGTCAAAGGGAAGAGCTACAAAAAGAAACCTGAGCTCTAGCATGGTACAGATGCTGACCTGAGAATTCCCGGCCCCCAAGCCCCATATCTTCCATTTCCTTTCTGGCTACCCTTGCAATACCAACCTTCACCCTTTCCCTATCCCCAGACTCTCCCTTCCCTCCTCAGCCTCAACGTTTCTTTCCCCTAAGTGTCCCCAACCACTACCCCTCTCCCTTTAG
Seq C2 exon
AACCTGTTTGAGCCAAAACCATCAGTGCCCGAGTACAAGGTGGCCTCTGTGGGGGGCTCCCGCTGCCTCCTCCTCCACTACAGCATCCCCAAGGCTGTCTGGGATGGTCTCATCCTCCTCGCCACATTCTACGTCGCGGTCACTGTCCCCTACAACGTCTGCTTCGCGGGTGATGACGACACCCCCATCACTTCCCGACACACCCTTGTCAGTGACATCGCTGTGGAAATGCTCTTCATCCTGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000035355-Kcnh4:NM_001081194:4
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.395 A=NA C2=0.012
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF0052026=Ion_trans=PU(5.7=14.6)
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:
GGGAGGAGAGGAACTAGCTCA
R:
CCACAGCGATGTCACTGACAA
Band lengths:
343-1289
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: