MmuINT0085473 @ mm10
Intron Retention
Gene
ENSMUSG00000038319 | Kcnh2
Description
potassium voltage-gated channel, subfamily H (eag-related), member 2 [Source:MGI Symbol;Acc:MGI:1341722]
Coordinates
chr5:24323071-24324585:-
Coord C1 exon
chr5:24324333-24324585
Coord A exon
chr5:24323265-24324332
Coord C2 exon
chr5:24323071-24323264
Length
1068 bp
Sequences
Splice sites
5' ss Seq
TGGGTATGG
5' ss Score
6.23
3' ss Seq
GTCTTCTGCACGGCCTCCAGGGA
3' ss Score
5.97
Exon sequences
Seq C1 exon
GTGCTGAAGGGCTTCCCTGAGTGCCTCCAGGCTGACATCTGCCTACACCTGAACCGCTCGCTGCTGCAGCATTGCAAGCCATTCCGAGGGGCCACTAAAGGCTGCCTGAGGGCGCTGGCTATGAAGTTCAAGACCACACATGCACCACCAGGGGACACACTAGTGCACGCCGGGGACCTGCTTACTGCCCTCTACTTCATCTCCAGGGGCTCCATCGAGATCCTGCGGGGTGATGTCGTGGTGGCCATCTTGG
Seq A exon
GTATGGGGTGGGGACGCCCACTGAAACCCAGAGAGACCTGAGCCCTCTGAATACACTGGGGTGTGGGGTGGCTGGCAGGATTCTTGTGTTCTTTTGTCACCCGAGGAGGGGCCTTCAGGGTGGGCAACAGAGAGGAACCCTGTAGGACACGGGGCTCTTAGATTGGGAGACTATGTAGCCTTCCCTGCACTTGAGGGAACTTCAGGATCTATCCATAGAAAGGCATCTAGTGTTTCCTTAAAGTTGAATATTGTCTTGTAGTTGAGTGGGACATTCTCATCTGGAGGCTATGCATCCACCTTCACTAAGGACACAGTTCCCTGAAGCTTCATGTCCCAATGGCCTGTGGCCATTGTGTGCATGGATGGCACTTGGACAGTGGAGGCTTCTTGCCCTCCCATGGTTGTTTTTTGTTTTTTGTTTTTTGTTTCTTGTTTCTTGTTTCTTGTTTTTGTTTTTTGTTTCTTGCATCAAACTTTTGCCCATGGCTTATAGACGTGCCCATTTTAGACTTTTATTTCACAGTTCAGCCCAAACATGTATACCACTCCACAATTTATTCCCTTCCCAGCGAAATCAAGTTTTCCTACACACGTGAGCACATTTTGGTCTTTTCTGTGCTTCGCTGTGCTAAGCTATGCTATCCTGAAATTTCTTTCAGTAAAACAGTACTGGTTCTGATTGACCACAAGCTGCCTTTTATAGTCTTAAGACCATAGTTTATAGGGAACTGTACTTTGTTAGGAGGGTATCTGAGGATAGAAGTAGAGTTGTCCCAAGGAAACCACCACTGCTGTAGGCAGAGCTGGAGCATCCTTGGCGGTTTCTAGCTGAGTAGTTGCTGAGAGACTCCAAATCTCTGGTCCTTCCCTCTGCCACCTCTGGCCACTGGTGTTTCCCCATCTGCTGAGAGCCCTGAGCATGTGAACTGGCTCAAGCTGCCTTGGCTGTGTGGCTGGGAGTTGGATGACTGGAGATGCTGTGCAGGGTGGAGCTGACCCAGAGGGTGCCCGCTCTTCTCCCACCGATGCCATGGGCTCAAGCCTTTGTCTTCTGCACGGCCTCCAG
Seq C2 exon
GGAAGAACGACATCTTTGGAGAGCCTCTGAACCTATATGCCCGTCCTGGAAAGTCCAATGGGGATGTGCGGGCCCTCACGTACTGTGACCTGCACAAGATCCATCGTGATGACTTGCTGGAGGTGTTGGACATGTATCCCGAGTTCTCAGATCACTTTTGGTCTAGCCTGGAGATCACCTTCAACCTTCGAGAT
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000038319:ENSMUST00000036092:9
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=0.015
Domain overlap (PFAM):
C1:
PF0002724=cNMP_binding=PU(45.5=47.1)
A:
NA
C2:
PF0002724=cNMP_binding=PD(53.4=72.3)
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:
GCTGACATCTGCCTACACCTG
R:
GTCCAACACCTCCAGCAAGTC
Band lengths:
354-1422
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