MmuINT0085481 @ mm10
Intron Retention
Gene
ENSMUSG00000037579 | Kcnh3
Description
potassium voltage-gated channel, subfamily H (eag-related), member 3 [Source:MGI Symbol;Acc:MGI:1341723]
Coordinates
chr15:99226981-99228042:+
Coord C1 exon
chr15:99226981-99227115
Coord A exon
chr15:99227116-99227908
Coord C2 exon
chr15:99227909-99228042
Length
793 bp
Sequences
Splice sites
5' ss Seq
GAGGTGGGT
5' ss Score
7.07
3' ss Seq
AGAACCCTCTTTTCTTGTAGGCG
3' ss Score
7.86
Exon sequences
Seq C1 exon
GGCTTCCATTCTGGTGTCTCCTGGATGTGATACCTATAAAAAATGAGAAGGGGGAGGTGGCCCTCTTCCTGGTCTCTCACAAGGACATCAGCGAGACCAAGAACCGAGGAGGCCCTGACAACTGGAAGGAGAGAG
Seq A exon
GTGGGTGCTCTGGCTCCTTGATTTAGAAGCAGAGATTTGGGCTCAGGCTCAGGGGTGTCTGTGACACTCAGTGTGGGTTACAGGCGCCCACTTGTCCTCACTGAGCTCCGCTCAGTCTGCGCTGCTGTGTGTTTAGTCCCGGGATGGGAATCTTATCCTAATAGGCTAGTTGAAACAAAGTTGCAGTTGTCAAGTAAACTTCACCTGCGGCAGGAACCCTTTCTTCCCCACTGACGAATGAGGCAGAACTACTCACCTGACTTCTTTCAGCACAGCATGCCTGATTGGGGAGTGGGGGGGACGACCCAGTGGATCCCCCTTCATGGGCTGGGGCAAGCTTTCTAAGTCACAGAACTGTCATTAGACACTGGTCCAAAATCTCCTCACTGTCTGGAGATGCTGTTCACACAGTCCATGCCACAGCTCTGCCCTCCCTCAGCCCTGGGGTTTGCTGGTGTCAGTCTTCAGTGTGGGTTCCTCTGAGCTTCCACACCTCTGCTGGCGGCATCCTACTGCACCTCTGCTGATGGCATCCTACGGTCTCGGTCTCTGCATCTTGAAACTCTCTTAGAGATTTCCCAGGCCTTTCTCTACTGACTTCTTTTCTTGTGTGGCTGAACCCTAGGACCGCACAGCTCCGATTGACAAGTGATCTGATGACAAGAGGAATGCCTAACCCCTCACTCTGAAAAGACAAAAGAGTCACCGAGCCAGATCATTTCACAGACTAACAACTAATACCCTGTGCCCAGGATCCTACAGCTTACTGTCACAGAACCCTCTTTTCTTGTAG
Seq C2 exon
GCGGTGGCCGGCGCCGATATGGTCGGGCCGGATCCAAAGGCTTCAATGCCAATCGGAGGCGGAGCCGGGCAGTTCTCTACCACCTCTCTGGCCATCTGCAGAAGCAACCCAAGGGCAAGCACAAGCTCAATAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000037579:ENSMUST00000041415:3
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.261 A=NA C2=0.333
Domain overlap (PFAM):
C1:
PF134261=PAS_9=PD(29.0=67.4)
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GGCTTCCATTCTGGTGTCTCC
R:
CTTGCCCTTGGGTTGCTTCTG
Band lengths:
254-1047
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