MmuINT1021606 @ mm10
Intron Retention
Gene
ENSMUSG00000026824 | Kcnj3
Description
potassium inwardly-rectifying channel, subfamily J, member 3 [Source:MGI Symbol;Acc:MGI:104742]
Coordinates
chr2:55435970-55437902:+
Coord C1 exon
chr2:55435970-55436510
Coord A exon
chr2:55436511-55436780
Coord C2 exon
chr2:55436781-55437902
Length
270 bp
Sequences
Splice sites
5' ss Seq
CAGGTCTCT
5' ss Score
1.07
3' ss Seq
TCAAACTCATTAATTTTCAGCAA
3' ss Score
6.12
Exon sequences
Seq C1 exon
CTCCATCCATCCGGGACAAGCAAAGGGCGGACATGGAATAGGAGATCGAAGGAAGGAAGACTCAAATGTTTCTATTGAGAGGCATGGGAAAAGCTGGAGCAAAAGCCGGTGTTTAACCTGAAAGTCTGACCTCCGTTCAGCAGTCGCACTGTCGCCTGGAAAGAGGGCATCGCACGCTAAGGAACCCGGGAGTCAGGCGTCCGAGTCAGTCTCTGCTTGGAGCATCAGGGGTTTCTGGCAGAGGCTGTGTAGTGTCCCCAGGGAGGCACGGAGCCTGACACACCTGCATTGGTTCTCATCTTGGAACACCAAGAAAAGTAGAAAGGGGTCAGGCACCCTAAGCGCAGGGTGCTTGGCCAGACTGCCTGTGCTGCTTGCAGAGCCTCCGCCTGTTCTCTGTCACTGGGTGAGTGCCCAGGCTTCCAGAGCTCCCTGGAGCGCAGGGGTAGCTTGACGTCCGCTCACCCCCTCCGGAGAGTCCACCCAAAGGCCCAGGTGGAGCGCGTGAAAACTCGGCCGCCGGCGCACCTCAGGAGTACAG
Seq A exon
GTCTCTAGAGTCCCGGGAGGGGGATTCTGAACCAGCAGAGAGTGGGTAGGGGGCGTTGCACCGCTGCCCAGGAGACATGCCTCTGGGCGGGATTTTGGCTAAAAGATAGGAGGCGGGAGTGACAAGGGACCTAGGGACACTCCTGGGGGGCGGGTGATTAGGGTGCAGCTGGGAGGGGGGAGGGTCTGGACCAGGCAGGTGGAGCAGTTTAGAAGCTTGGGGAGTTAGCAGGTGGGGTGGGACTTGTTTGTCAAACTCATTAATTTTCAG
Seq C2 exon
CAACCAGTTCATGGGTGCTGCAGGACAGTCGAGGGTGGGGTGCCGTGGAAAGGTAAGAGGTGGCCCGGGATGGTGATGGTGGGGGGAAAAAGAGAAGCCTCAAAGAGCTCAGAGGCAAATTTTCACTTGGGTTCTTGCCCCTTGCATTCCCCTTGCCTTGAGTGTGGGAGAACACTTCTGTTTTAGCCCTGCTCCTGGAAAGAAAGCCTCTGTCCCAGGGGAGGAGAGGCATCCGGACGGGGCAAAGACTGCTGCTACCTGCAGGGTGCTCCCCACCCCCACCCCCAACCCAGGCGCCTGCTTTCGTCCCCTCCCCTCCTGCTTTCATCCCCTGCCCCCACCTCCTTATTGGTGCTGGTTTGCAGCGCTTGGCTCCTGCGCCTCCGCTTCGTGTTTGAATCTGGCTCGCCCCTCCGTATTATGTCTGCACTCCGAAGGAAATTTGGGGACGATTACCAGGTAGTGACCACTTCGTCGAGCGGTTCGGGCTTACAGCCTCAGGGGCCAGGACAGGGCCCGCAGCAGCAGCTGGTGCCCAAGAAGAAACGGCAGCGGTTCGTGGACAAGAACGGCCGGTGCAATGTGCAGCATGGTAACCTGGGCAGCGAGACCAGTCGCTACCTTTCGGACCTCTTCACTACCCTGGTGGATCTCAAGTGGCGTTGGAACCTCTTTATCTTCATCCTCACCTACACCGTGGCCTGGCTCTTCATGGCGTCCATGTGGTGGGTGATCGCTTATACCCGGGGCGACCTGAACAAAGCCCATGTCGGCAACTACACTCCCTGTGTGGCCAATGTCTATAACTTCCCCTCTGCCTTCCTCTTCTTCATCGAGACCGAGGCCACCATCGGCTATGGCTACCGCTACATCACAGATAAGTGCCCCGAGGGCATCATCCTCTTCCTCTTCCAGTCCATCCTTGGCTCCATCGTGGACGCTTTCCTCATCGGCTGCATGTTCATCAAGATGTCCCAGCCCAAAAAGCGCGCCGAGACCCTCATGTTTAGCGAGCATGCGGTTATCTCCATGAGGGACGGAAAACTCACTCTCATGTTCCGGGTGGGCAACCTGCGCAACAGCCACATGGTCTCCGCGCAGATCCGCTGCAAGCTGCTCAAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000026824:ENSMUST00000067101:1
Average complexity
IR
Mappability confidence:
NA
Protein Impact
5' UTR
No structure available
Features
Disorder rate (Iupred):
C1=NA A=NA C2=0.098
Domain overlap (PFAM):
C1:
NA
A:
NA
C2:
PF0100715=IRK=PU(55.2=79.9)
Main Inclusion Isoform:
NA
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
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:
GTAGCTTGACGTCCGCTCAC
R:
CCAGGAGCAGGGCTAAAACAG
Band lengths:
294-564
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- 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