MmuINT0085499 @ mm9
Intron Retention
Gene
ENSMUSG00000035355 | Kcnh4
Description
potassium voltage-gated channel, subfamily H (eag-related), member 4 [Source:MGI Symbol;Acc:MGI:2156184]
Coordinates
chr11:100616448-100617227:-
Coord C1 exon
chr11:100616984-100617227
Coord A exon
chr11:100616606-100616983
Coord C2 exon
chr11:100616448-100616605
Length
378 bp
Sequences
Splice sites
5' ss Seq
TGGGTCAGA
5' ss Score
1.91
3' ss Seq
CCGTCTCTTGCATTCCTCAGACA
3' ss Score
7.97
Exon sequences
Seq C1 exon
AACCTGTTTGAGCCAAAACCATCAGTGCCCGAGTACAAGGTGGCCTCTGTGGGGGGCTCCCGCTGCCTCCTCCTCCACTACAGCATCCCCAAGGCTGTCTGGGATGGTCTCATCCTCCTCGCCACATTCTACGTCGCGGTCACTGTCCCCTACAACGTCTGCTTCGCGGGTGATGACGACACCCCCATCACTTCCCGACACACCCTTGTCAGTGACATCGCTGTGGAAATGCTCTTCATCCTGG
Seq A exon
GTCAGACCCTCTGCTCTACCAACCTGGAGGGTGGGCTGGGGGGGGGGGAACCCTCCCTCCATTCTGGGTCTGCTGAGCCCTTCCTTAGCTTGAATAGTCTTCTTTTTGTAGTTCTGAGCTCTAGGGGCCTAGTGAGGAGTGAGTATGCTCTCAGAGGGGGAGGAGGTTTACCGCCCAGACCCTGTAACTCCTGTGGTACCCAGTGCCCTGCAGCCTTCAGCCTTGTGGCCTTTCCTTCCTATAGATCATCCAAGAGTTTCAGCTTTCTTCAGTTTGCCTCCTCCTCCATTCTGGGCCTCCTAGCTTGCCCCATTCATTAGCTACCTGACCTGAGAGTTCAGGCTATGGTCCCTAGCAACCGTCTCTTGCATTCCTCAG
Seq C2 exon
ACATCATCTTGAACTTCCGCACCACCTACGTGTCCCAGTCTGGCCAGGTGATTTCGGCTCCTCGGTCCATTGGCCTCCACTATCTGGCCACCTGGTTCTTTGTAGACCTCATTGCTGCTTTGCCCTTTGATCTGCTGTATGTCTTCAACATCACTGTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000035355-Kcnh4:NM_001081194:5
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.012 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0052026=Ion_trans=PU(5.7=14.6)
A:
NA
C2:
PF0052026=Ion_trans=FE(24.8=100)
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:
ATCAGTGCCCGAGTACAAGGT
R:
AGATCAAAGGGCAAAGCAGCA
Band lengths:
357-735
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: