MmuINT0135479 @ mm10
Intron Retention
Gene
ENSMUSG00000041528 | Rnf123
Description
ring finger protein 123 [Source:MGI Symbol;Acc:MGI:2148796]
Coordinates
chr9:108052445-108056121:-
Coord C1 exon
chr9:108056037-108056121
Coord A exon
chr9:108052588-108056036
Coord C2 exon
chr9:108052445-108052587
Length
3449 bp
Sequences
Splice sites
5' ss Seq
AGAGTGAGT
5' ss Score
7.36
3' ss Seq
ATGCACCCTCCCCTACCTAGGAC
3' ss Score
8.55
Exon sequences
Seq C1 exon
GGCTGGAGAGTGTGGACCACTACCCTATCCTGGTGGCAGTGACTGGCATCCTGGTACGCCTCCTGGTGCACGGCCCAACCTCAGA
Seq A exon
GTGAGTGTTGGGGACTGCTGGCCTCCTGGGAACTGGGTGTGCATTTTGAGGAGGGGCTGGTAGGGCAGAGCCTCATGGTACCTGTTTCCTTGTCTCAGAATGAACTTCAGAGTCTAGTTTGGGACACTGAGGCAAAGAGTAACTGGTGATGTGTAAACTGCTTAACCGGGTGTCAATAGCAGCTGCTTTGGCTGGGTAGGAGGGCTTTTTCAGCCACATCCCTTGCAGGGGCCTAAATCCCCAAACTTGGAAGATGTGCTATTCTCTGATGGCCAGGGCCATCCTGCTGGATCAAGAGCTGAGCACACAAGGGGATCCATCTGGGAAGGCCCAGCGATGATCATGTACCACTTTTATTACAAAATGTCATAGCAGTCAGACAGCACAGTGCTGCCAGCTCATCATTGGGCAGGCACTGACCGTCTTCCACACCCACCCCAGTGGGTGTGCAGGGCGCATGCCCTGAGGGCTCTGTTTAGCCATTAGGTTGAGATGAGTGCCAGCTCTTGAGAGGCCTCCTGCTCTCCAAAGACAAGAGTCCCAGGTTAGTCACCTATCTATGCTTTTTCCTGCTGGGTTGTGAGCCTTAGGGATTGGGTCTGCCTGTAGCTGAAGACAGCAGGGCTACTCTGTAGGAGGGTCCTGTAGGTGTGTATGCCCACCAGACTCCACAGGAGTTGCAAAGCTTTCAGGAGGCTGGGTGGCAGCAGACTGGGTCCTCTTTCAGTACAGGGAAGGCTCATTTCCTCCTTCCATCTCAGAGTGGAAGCTGGATCTTCTGAGCTGCCAGTTCCCTCCGGGCAGGGAGGGGAAGTGTGGTATGCTTGACTCTTCTATACCACACCCTGACATCTGCATTAACTCCTGGGGGTGGTCCCCAGACTCTGATGCCAGGGCTTTTATCAGATTGGCTTAGTCTGTAATGTTAATGGGACATTTGGTCACTCTGTGGTCCTAGGGGAAGCAGGCTCTAGTAGTCTGAGACCTTGTCCTGAGCTAGTGTTAGAACTGTTACAGTAGGATCAAGGCTCACATGCAGTTGTGGGACCAGGCACAGCACGCCCCACCAGCAGGTCAGTTCTTTAGACTGCAGCAGCAAGCAGGGCAAGCAGCAGGAGATCTCAGGCAGTCTAGCTCATCACGAGACCCTCTGAGCCCGTGGAACTGGCTGATTCAGAGCCAGCCTTGAGTTGCAAGCCCATGGGGTTGCACAGATCGAAGTCTTCAGCTACTGCGAGCTGCACACGGCCATTGAGGCCCTTCTTGCCCGGCTCCAGGAAGACCACATGCTTGTGGACACTGGCCTTGCGGCTGGGTGCATCTGGTGGCGTAGTGCTAAGCATGGAGGACTGTGCGCTCAGCTCCTGGAGTGGACTGGATGCCCGGGGCCAGCAACGGTTGCGGCAGGCCCGCTGACAGCAGTGACAGCAGCCACGACAGGGTGGTGCAAACAAGTAGAGCAACACCAGCACCAGGCCCACAATACAGCCCAGCAGGGTGGTAAAGCCTGTGTTGAAAGTCTCTGGCTCGGGGCGAGCCTTTTGCACACTCACATTGTACTCAAGTGTCTGGTTGTGGTGCAGGCGGGGCCCACTGGCCAGGCACACAAAGACGCCTGCGTGCTGCTCTTGCACCCTGCCTATGGCTAAGCTGCCATCAGCCAACACAGCGATGCTACCATCCTGAGAGGCTGGCGCCACAAGCAGCTCATTCTTCGGGGAGACCCAGGCCACCCGAGTGGCAGGCACACTGGTGTTGCAGAAGAGCCTCAGGGACTGGCCCACCTGCGCGTGCAGCTGCTCTTCAGGCAGCTCTAAGCCTGGAGCTGCAGCCACAGAGCAGTTCTTGAAGACCCGGCTGTGCTCAAAAAAGCGCACTCGGGACTCTGACACCTTAAAGACCAAGCATGTGTACTCGCGTTCAAAATCATGCAGGGCACTCAGGCCCCGCTGGTGCCAGCGCCGGAGCAGGTGGTAGAGGCTGCAGTCACAGGGCAGCGGGTTGTTGTGCAGGTAGAGCCTGTTCTTGAGATAAGTTGGCAGTGCAGCCAACTCAGGGATGGAGATATGTTTCAGCCAGTTGGAGGAGAGGTCCAGAGTCCGCAGGCGGGTTAACCCCAGACCGTGCAAGTGGTTGAAAGAGAAAGAGGAGAGCTCGTTGCAGCTGAGATAGAGGTGGCTAAGCATGCGCAGGCCCTGGAAGGCATCCAGGTCCAAGTGCATCAGGCTGTTATTGAACAGAAGTAACTTCTCCAGCTCCTCCAGGCCATCCAGGTCATGGGTATGGAGCATCCTTAACATATTAGAGGACAGGTCAAGTGTCCTCAGGCCACTGGCATTGGTGAACGCACCATGGCCCAGGACTTCCAGCTTATTATAGCCTAGGTGCAAGGCACGCAGCCGGGAGAGGGGCGCTAACCACCCCGGGTGCAGGCGTTTGAGTGCGTTGTGGCTCAAATCGAGTTCTGCAGCAGTGGTAGGCAGTGCTACCGGCAAGTCCTGTAACCCACGGCCCGCACAGCTCAACACATCGGCAGCACAGATGCATATATCGGGGCAGTTGTGGGGAGCAGGAGGCAGAACATCCTCCAAGTCTGAAGTGCCCAATCCAGCACCCAACATGCATAGTAGTATACCTGATAGCACTAGCCAGGCCATGCCAGTGACTACCAGGGAAGATATGGGGACAGCTCAGTGCAGGTCAACAGCTCCAAGACTCACCTACTTCTGCACAGGCTTGCGGATTGTGGTTCCCTATGGCCCATGGCTCGAGAGGCACAACGCTGGCTCCCCCTGCCCAGCCGGCTTCTCCTGCTCTTCTGGTCTGGGTTGTGAGGTGGGGCCCGCAGCCCTTCTTCTAGCTTCTCCAAGAGCTTTCTGACTGGATTCTAAGTACTAGCTAGGAAATGACCGCTCAGGGGCGGGGACCTAAGTTCCCATTGGCTCCTGCTGTTAAGGGGCGGAGCAGCCACATCTCTTGGCACTTAAAAAGCCAGTGTGGCCACCAGAGGGCCCCAGTGTCCCAGTCTGCTTGGCTGGAAGCCTGACTTCCCTCTTGAAGAGCAAAAGGACTTAGGGGAGAATGCCTTCAGCCCTCAGAGGATTGGTGTGTAATGGGGTAGGTGGAGTCCTTGCTGCTCTCTTAGATTTACTTATGTCTGTGTATGTGAGCATTCGTGCAGACGTCGGACGACGACTTGTGAGGTTCTGGGGATCAGACCCAAGTTACCATAGCTGGTAGCAAGCACCTTTTTATCAATAGCACCCTTCTCTTTAAACTGGTATTCAGGTCATGTGGGACCAAACACCTGGGAGGGTTGGTAAGTAATAGGGGGGAGAGTGGAGGCATAATAATGAGCGAGGCCTCTGGATATTCATCTGTCCCACGTGGAGAAAATGTTCACACAGGCTCAAAGCCTTCCTACGACCTATGCACCCTCCCCTACCTAG
Seq C2 exon
GACAGAGCAAGCCACCTCTGTGCTCCTGGCTGATCCCTGCTTCCAGCTTCGTTCCATATGCTATCTCCTGGGGCAGCCAGAGCCCCTAGCACCTGGCACTACCTTGCCTGCCCCTGACCGGAAACGCTTCTCTCTACAGAGTT
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000041528:ENSMUST00000160249:35
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.106
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF042167=FdhE=PU(14.6=28.6)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
No suggested primer sequences
R:
No suggested primer sequences
Band lengths:
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