MmuINT0085465 @ mm9
Intron Retention
Gene
ENSMUSG00000038319 | Kcnh2
Description
potassium voltage-gated channel, subfamily H (eag-related), member 2 [Source:MGI Symbol;Acc:MGI:1341722]
Coordinates
chr5:23825407-23827240:-
Coord C1 exon
chr5:23827063-23827240
Coord A exon
chr5:23825968-23827062
Coord C2 exon
chr5:23825407-23825967
Length
1095 bp
Sequences
Splice sites
5' ss Seq
CAGGTACAT
5' ss Score
7.79
3' ss Seq
AAGCTCTGTGGTCTTTGCAGGTT
3' ss Score
7.44
Exon sequences
Seq C1 exon
GCTGGAAACCCGGCTAAGTGCAGACATGGCCACTGTCCTACAGCTGCTACAGAGGCAAATGACCCTGGTCCCTCCTGCCTACAGTGCTGTGACCACCCCTGGGCCCGGCCCCACTTCCGCATCCCCTTTGTTGCCTGTCGGCCCTGTCCCCACTCTCACCCTGGACTCGCTTTCTCAG
Seq A exon
GTACATTCTAGAGCCCACTCCCAGCCTCCAGCCGCACCCTCTCTGCCCCAACGACTGCACAGCTGCTGGGTGTGAAATGTGGCTTCCTCACCCCCATCCTCTTCTACCTGCTCCTGCCAGGCAACCTAAGGGCCAGATGTAAACATGATGTCTGAGCCTGGGCCTTGGGTCTGGATGCTGCCTGAGAGTGGTCCCTGCTGTGGTTATCCCCCTCTGACTTTGCCGCCTCTCATCTTGGCTCTTACTCTAGCAGTGCTATAGCCTCCTGAAGGCTGCTGGCATGTCCAGGGTGCCAAGATCAAGGCTCTGAGATAGGACCTCCCTGATCCACATCTCTTCTCTTTGAGTAACCTCCTGAAGGACAGCTGTAGCTGGGTCTTTTCTGCCAGCTCTAGCTTTGATAGGTGCTTGAAGGGGGTGGGGGTGGGGGCTCCTATGGCACCCAGAGGTGGCTTGGGATCTACTCCCACCCCCAGCTCTGCTCCCTGTCCCATATGCTGCTTGCTCCTGTTTGCAGACACCAGGGCCCACGTCAGCAAATGTGCCAGTCTCCCTTCACAGCCTCCCCCGCAGGGATCTCACCAGTAGACACGTCAGCACCCACAAATCCCTCCTGCCCGCCCTAGCGCTCTCCCTGGCCTCAGAGACCTGGCCGCTGGCCCACTGTTGTTTCCAGGGCCCCAGGGTTCTTTGGAAAATTGCAAGGAGGCACCTTGTCTCTCTCTGTCTTAGCTGCCTTCCCAAAGCAGGGACTTCTTATTCCATGTAGGCTTTGCTCCCGCTGCCCTGGCACATTCCCTAGGGAAGGGAGAGGCTAGAGCTTGGAATCCAGCTTCTCCGGGTCCAGAGCAAGGTCCTCTGTCAGGGTGGCTGTGAGTGGCTCTCAGCCCTTTCATTTGGCTCCTGCCACAAAGGTGCATTTCTTTACAGAAGTTGCAGCCTTCTTGTCCCCTCAGGTCCCCACTCTGCCCACCTAAGCCTCTCTGACCTCCAGTCTCCGCCCCTTCCTCCTCCCCCACGTTTCTGACCTCCGGTCTCCGCCCCTTCCTCCTCCCCCACGTTTGAGTGCCTTCTCAAGCTCTGTGGTCTTTGCAG
Seq C2 exon
GTTTCCCAGTTCGTGGCGTTTGAGGAGCTTCCTGCAGGAGCCCCAGAGCTCCCCCAAGATGGCCCCACTCGACGCCTCTCCCTGCCCGGCCAGCTGGGGGCCCTTACCTCCCAGCCCCTGCACAGACATGGCTCAGATCCAGGCAGTTAGTGATGCTGCCCACTGTGGACATGTGGCTCACCCTGGGTTCAGGGCATTACCTGACCGCTCTCCTTGGAGACCCTGGTTTGGAGGGGAGACCTGTGCAGAAGCACCTCCATCCCCACCCTTGGGACCAGCATCTCCTCCTGCAATACCCTGGGCCCCACTGGGAGGGGCAGGACAGAGCTGGGCAGTGGATGGGGGTCTGTGGTCCCCCCACTGCCCTGGGGGCATTAGCTGGTCTAACTGCCCGGAGGCACCGGCCCTGGGCCTTAGGCACCTCAAGGACTTTTCTGCTATTTACTGCTCTTATTGTTAAGGATAATAATTAAGGATCATATGAATAATTAATGAAGATGCTGATGACTATGAATAATAAATAATTATCCTGAGGAGACTCCAGGGTGCTGGTTAGCTTCA
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000038319-Kcnh2:NM_013569:14
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.583 A=NA C2=0.857
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion 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:
CAGAGGCAAATGACCCTGGTC
R:
CCAAGGAGAGCGGTCAGGTAA
Band lengths:
346-1441
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: