MmuINT0085613 @ mm9
Intron Retention
Gene
ENSMUSG00000038026 | Kcnj9
Description
potassium inwardly-rectifying channel, subfamily J, member 9 [Source:MGI Symbol;Acc:MGI:108007]
Coordinates
chr1:174258129-174259394:-
Coord C1 exon
chr1:174259266-174259394
Coord A exon
chr1:174258230-174259265
Coord C2 exon
chr1:174258129-174258229
Length
1036 bp
Sequences
Splice sites
5' ss Seq
TCTGTGAGT
5' ss Score
7
3' ss Seq
ATATGGTCCATATCTCCTAGGGG
3' ss Score
6.9
Exon sequences
Seq C1 exon
AGGAGAAACAGCAGTGTCGGCGGCTCCCAATCTCAGAGGGAACCTAGGGTACTGGGGGAGATGGTGTCAGGGACATGGACGCCAACCCCCAAGGGTCCCTGCTGCTGGCTACTCTTCTCTCCAGGCTCT
Seq A exon
GTGAGTTGAGTTGTGGGACTTGGGGTTTGGGCCCCTATTTCTGAGCCAAGAGGGGTTTGGGTGGAGCTGCTCCCAGAGGGACTTCTCCCCGACAGACCCCTTTCCAAAAGATAAGCCCCCTGTACTGGCCAGCGCTCTCTAGAGGGAGGTGGAGTACTCCAAGATAATGTGGTGCTCGGATCTTACTGAAAGGGGTCACAGCATGCCCAAGAACTGTGGTCGGAAGAACTGGAGTTATTTGGAGGGAAGAGGAAGAAATGAAGACGTTGCTCTTCAGGTGGTGGACACCGCACACCTTTCCTGTCCCATGAAGAAGAGAGCTTTTCTCGAGATGGCAATGGCTAGGATGTCATCAGTAGGCTCCCTGGGCAGTCGTGTTCTGGGGATGATCAGACACTGGGAATCCTTCCCCATTCCTGGCCGTAGATGGAGGTCAGATCACCTTAGACCCTACGAAGACTGTCTAGAAGCCCACCTGAAGTTAATACTAGGATGAAAGAGACCTGGGGTCTCGAGGCACTGAAAACTTACAGATGAGGTGCAGAGGACATCCTGGGCTGCAGAGAGGGAAAAACAAGCCTGCTTGCTGTTGGGGGAGGGGAAGATCTTAATCTGCCATTGCCGAAGTGTTCCCAGGTCATGTCTCCTGACTTCCATGGAAAATAAGTGTGTGGGGTTACAAACCATCTTTTTGGGTTTTTTTCCTTGTGCCTTTCTTTAACATACACACACCCTCCAAAGGTCTGCTGGCTACAGAACACTTGGCTCCAAAGTTTAAAAATGGAATGTCGGGTTTGTGGGTATATATTCATGCAGTTTCTCCCTAGGATCTGGTCAAACATCCAAACCATCTGAGATCCTTATGTCACATTTCTGCCCCCACAGGGCCACCTGCTCTCCCCACTTCCCCAGCCTTCCTGCCCCACCCCTCACCCTGAATGGGAGGAGATGGCAAATCCCAGGAAAGAGAAAGGAAGGTTGATGAGTCTTAATCCTTATTCTACAGACTTCTGTTCATATGGTCCATATCTCCTAG
Seq C2 exon
GGGACCCTGAAAGCCTAGGAACCGACTCTGGCCATCCATCTCTCCGGGAAGATTATAACCCAGAGTGCTTCTCAGGGGGGAAGAATTTGAAGCAAAACCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000038026-Kcnj9:NM_008429:1
Average complexity
IR-C
Mappability confidence:
NA
Protein Impact
5' UTR
No structure available
Features
Disorder rate (Iupred):
C1=NA A=NA C2=NA
Domain overlap (PFAM):
C1:
NA
A:
NA
C2:
NA
Main Inclusion Isoform:
NA
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping 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:
AGGAGAAACAGCAGTGTCGGC
R:
CTGGTTTTGCTTCAAATTCTTCCCC
Band lengths:
230-1266
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: