MmuINT0085477 @ mm10
Intron Retention
Gene
ENSMUSG00000037579 | Kcnh3
Description
potassium voltage-gated channel, subfamily H (eag-related), member 3 [Source:MGI Symbol;Acc:MGI:1341723]
Coordinates
chr15:99239595-99240993:+
Coord C1 exon
chr15:99239595-99239926
Coord A exon
chr15:99239927-99240886
Coord C2 exon
chr15:99240887-99240993
Length
960 bp
Sequences
Splice sites
5' ss Seq
CAGGTGAGC
5' ss Score
9.6
3' ss Seq
TTGATTTCTTGGGTCCACAGGGT
3' ss Score
8.49
Exon sequences
Seq C1 exon
GTGGATACCAGCTCCCTGAGTGGTGACAACACCCTCATGTCCACACTGGAGGAGAAGGAGACAGATGGGGAGCAGGGACACACGGTCTCACCAGCCCCAGCAGATGAGCCCTCCAGTCCCCTGCTGTCGCCCGGCTGTACCTCCTCCTCCTCAGCCGCCAAACTACTCTCCCCACGTCGAACTGCGCCTCGGCCGAGGTTGGGTGGCAGAGGGCGGCCAAGTAGGGCAGGGGTTTTGAAGCCTGAGGCTGGTCCTTCTGCTCATCCACGGTCACTTGATGGGCTGCAGCTACCCCCCATGCCATGGAATGTACCCCCAGACCTGAGCCCCAG
Seq A exon
GTGAGCCGGCCCTGGACTTCATGGCAAAGTTGTGGTGGCTAAGACAGAGGCACCAACGAGGCACACTTTCACCCTAAGTGTCCATTTGGGGTTTTTGTGTGTGTGGGTTTGTTGTTGTTTTGTTTTATTTTTTTGTTTGAGACTATGTAACCCTGGTTGATTCCCACTTTGTAATCCTGATTCTGTCTCCCGAGTGTGGGGATTACAGATGTGTGCCATGCATCATGTTTTCTCCTCCTCCTCCTCCTCCTCCTCCTTCTCTTCCTCCTCCTCCTCCTTCCCTTCCTCCTCCTCTTCTTTCTCCTCCTCCTCTTCTTCTTCCCCCTCCTCGATTTTATTTTTAATTGGTTGTAAGGCAGGGGACTGTACACATGAGTGCAGGTCCCCACAGAGGCCAGAAGAGGGCATTGGGTGTCCAGGATTGGAGTAATAGAAGGTTGTGAGCTGTTCTGTGCAAGTTCTCTGCAAGAACAAAACAGGCTCTTAACTGTTGCATGTAGTTTTATGCTCTACTCGACTTTGCTCCGGGAAGTGGCTGCACTACCAGCCCCTTCCCAGCTTCCCTTGAATCCTCGGATAAAAAACAAAGACACACATGTTTTCAATGACAACTTGCCTTCTTGGCACAACTGCAGAGGTATTTCTCCAGGCCCTATCCTTCTAGTCATCATGGTCCAAACCTGCCTGCCTTCCCTGATTGCTGCGATTCCCATTAGCTGGCTAGAGGGGGCTTACTTTCACTGTGTTACTCCAGTGAAATCTTGTGTCACTCCAATGTACTCTTCAGTAAACCACAAGCTCCTAGGGAAATGGACTGTACAAGCTTCTTAGGATGCCCAGGTCTAGCTTTGAACTTCTGCAGCAGCTGACATGTGTGAACACTGGAATGTCCCATCCTGACACCATGGTGGCTGCCTGTTGTCTGATTTGATGTCCTGCCTTGATTTCTTGGGTCCACAG
Seq C2 exon
GGTCGTAGATGGCATTGAAGATGGCTGCAGCTCTGACCAGCCCAAGTTCTCTTTCCGAGTGGGTCAGTCTGGCCCAGAATGTAGCAGCAGCCCCTCCCCAGGAACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000037579:ENSMUST00000041415:12
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.991 A=NA C2=0.946
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GATACCAGCTCCCTGAGTGGT
R:
TGCAGCCATCTTCAATGCCAT
Band lengths:
358-1318
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