MmuINT0085614 @ mm9
Intron Retention
Gene
ENSMUSG00000038026 | Kcnj9
Description
potassium inwardly-rectifying channel, subfamily J, member 9 [Source:MGI Symbol;Acc:MGI:108007]
Coordinates
chr1:174255837-174258229:-
Coord C1 exon
chr1:174258129-174258229
Coord A exon
chr1:174256715-174258128
Coord C2 exon
chr1:174255837-174256714
Length
1414 bp
Sequences
Splice sites
5' ss Seq
CAGGTGGGT
5' ss Score
8.56
3' ss Seq
CTCGGCACACCTTTATTAAGACC
3' ss Score
0.25
Exon sequences
Seq C1 exon
GGGACCCTGAAAGCCTAGGAACCGACTCTGGCCATCCATCTCTCCGGGAAGATTATAACCCAGAGTGCTTCTCAGGGGGGAAGAATTTGAAGCAAAACCAG
Seq A exon
GTGGGTTTTGCTTGGAATCTGGGCTTTGTGTGGAATGTGGGCTTTGGGACATATGGCAGGAGTGGGTGGGGTTGCTGGTAGGGTAGTAAATGCAAATCAGGAAATTGGTAGGGGGGGTCGATGTGGGTGTTTGGTGTTTCGATTGGTCTGATTTCTTATCTCTTAGAAGAATACGAATCTGAGAGATACTAGACTAGCGTAACTCTGGATGGCTTGGCGCCTCCTTCATCCTTGCCGTGGGCAGTTGACCTCACTCGTCATCCTTGCCGTGGGCAGTTGACCTCACGCATGGCCCCCAATCTCCTATTGCCAACCCTTTTCAGCGTGTCTCCTGTGGGAAAGAGCCCTGGCAGGAAATGGGCTGGTATCAGAGCATCAGTGACCACGGTGAAGCAGTTAGAATTGCCAGTGGGAAGTTCCCAATGCTGAGGACATCCAACCTTTGCACACTGGAGGTTTTTGTGCACAGTCTGCATTGCTTTCTCCTTGGGAAGTCTGGGGTGGAGGGGAAATGTAGCAGGAGAAAGAGTGAGGCCAGGGAGAACACCGAGGGAACAGTCTTCAGGTGGGGCTTCTGGCAGGATGCTGAAGAGTGCTGGGGGAAGGGATAATTGCCAGGGAAAGGGCTGTGGAAGTCCTCATCGCAGGGAGGGCTTTGCATGGAGAAGGAACTGCCAAGAAGTCTACCTCTTCAGTACCCTAAATGTCTGATCCGGGGTGCCTGTGAGTTGCTACATACACCAGCTTGAGGTAGTGACGCTGAGATCTGTGACATCGAGATGGCTAATGCCTCTTATTGAACTTCGACACCCAGTTTGTGCTCTTTATCTGTGTAATCTGTACAACTCTCTCTCTCTCTCTCTCATAATTCTTTATTCTTTTTTTAAAAGATTTATTTACTTAATGTATATGATTACACTGCCGCTGTCTTCAGACACATCAGAAGAGGGCCTAAGATCCCATTACAGATTGTTGTAAGCCACCAGGTGGTTGCTGGGAATTGAACTCAGAACCTCTGGAAGTGCAGGCAGCGCTCTTAACCCCGCTGAGCCACCTCTCCAGCCATACAACTTTTTCTTAACCATTGTTTTATTTTATGTAATAGTTTGCCCTCATGTACGTCTGTGCATTACCCTCGGAGGCCAGCAGAGTGCGAGTTACAGCCGGTTGTGAGCCGACTTGAGGGTGCTGGGAATCGAAATAAGATCCGCTGGAAGAGCAACCAGTGAATCATTTGAGCCATCTCCCCAGCACCTGTCCCCCAACTTTCTGAGATTTATGGGATGTTAGGGATTATCGTTCCCAATCCACCAGTGGGGAAAAACTAAGGCTAAAGAGACAGGAAGGGAGATTGTCTCACAGCATTGGCCCTGAGTTCGGGGCAGATCCATCAACTCGGCACACCTTTATTAAG
Seq C2 exon
ACCCCGCAGGATCCCCGCTGCGGCCGCCATGGCGCAGGAGAACGCCGCTTTCTCTCCCGGGTCGGAGGAGCCGCCACGCCGCCGCGGTCGCCAGCGCTACGTGGAGAAGGACGGTCGCTGTAACGTGCAGCAGGGCAACGTCCGCGAGACCTACCGCTACCTGACCGACCTGTTCACCACGCTGGTGGACCTGCAGTGGCGCCTCAGCCTGCTCTTCTTCGTGCTCGCCTACGCGCTCACTTGGCTCTTCTTCGGCGCCATCTGGTGGCTCATCGCCTACGGCCGCGGCGACCTGGAACACCTGGAGGACACCGCGTGGACCCCGTGCGTCAACAACCTCAACGGCTTCGTGGCCGCCTTCCTCTTCTCCATCGAGACGGAGACCACCATCGGCTATGGGCACCGGGTCATCACCGACCAGTGTCCCGAGGGCATCGTGCTGCTGCTGCTGCAGGCTATCCTGGGCTCCATGGTGAACGCTTTCATGGTGGGCTGCATGTTCGTCAAGATCTCGCAGCCCAACAAGCGCGCCGCCACTCTCGTCTTCTCCTCGCACGCCGTGGTGTCTCTGCGCGACGGGCGCCTCTGTCTCATGTTTCGCGTGGGCGACCTGCGATCCTCGCACATCGTCGAGGCCTCCATCCGCGCCAAGCTCATCCGCTCCCGTCAGACGCTCGAGGGCGAGTTCATCCCTTTGCACCAGACCGACCTCAGCGTGGGCTTTGACACGGGGGACGACCGCCTCTTTCTCGTCTCACCTCTCGTCATCAGCCACGAAATCGATGCCGCCAGCCCCTTCTGGGAGGCATCGCGCCGCGCCCTCGAGAGGGACGACTTCGAGATCGTAGTCATTCTCGAGGGCATGGTGGAGGCCACGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000038026-Kcnj9:NM_008429:2
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
5' UTR
No structure available
Features
Disorder rate (Iupred):
C1=NA A=NA C2=0.053
Domain overlap (PFAM):
C1:
NA
A:
NA
C2:
PF0100715=IRK=PU(76.9=91.2)
Main Inclusion Isoform:
NA
Main Skipping 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:
GGGACCCTGAAAGCCTAGGAA
R:
CCGAAGAAGAGCCAAGTGAGC
Band lengths:
356-1770
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: