MmuINT0006130 @ mm10
Intron Retention
Gene
ENSMUSG00000056004 | 9330182L06Rik
Description
RIKEN cDNA 9330182L06 gene [Source:MGI Symbol;Acc:MGI:2443264]
Coordinates
chr5:9459180-9461500:+
Coord C1 exon
chr5:9459180-9459306
Coord A exon
chr5:9459307-9461321
Coord C2 exon
chr5:9461322-9461500
Length
2015 bp
Sequences
Splice sites
5' ss Seq
CAGGTAAGA
5' ss Score
10.77
3' ss Seq
TCATTTATTTGTCTTAAAAGGAA
3' ss Score
8.26
Exon sequences
Seq C1 exon
CAAGTGTCCAGCTGGCACCTGTGATGGTTGTACCTTCTACTTTCTATGGGAGAGTGCAGAAGCTTGCCCTCTGTGCACAGAACATGACTTCCATGAGATCGAGGGAGCCTGCAAGAGAGGGCTTCAG
Seq A exon
GTAAGAACTAACCTATGGAGGCACCCTGAAGAGATGTCAACTGCTGTTCCCCAGCATGTCTGTGAATTAATGAAGATTTCTTTGGATTATAAAGCTTCATGACTTAACAAAAATAATGATCAGGAAAGTACTTCAGTGTGTATCTTTAGAAATTTTAAGCATTTAATTTTAACGACTGCTTCAGTCCTATTTCCTTCCCTACTCTGTTCATTTTTCTACTTTGTGTTGACCGGGCATGCAATTCCACTATTCTGTAAGTATTTCAAATATATATCTGTATAGTTCACAGAATGTAAGTCCTTCACACATAGCTGACAGAAGCAGAAAAGCCTTCATGGCTTGTGAGAGAAGTACTCTTATCAAATTGAGATCTCAAAAGGTCTATACCAGGTTCGAAGTATGCGGTAAGCATCATATCTAGTGTTAGGCAGTAATAGAGATTTGACGTGATTCTGTGTTATCAGTAAGAGAAATGCTTTCGAATTTATCACTAAATTTATCTTAATCCTGTTAGAAAATCCTCCTTCATGCTGGAAGAAGGGACTGTTCCACTGTTCTGCCAGCTTTCTGCTCCTGGTGATACCTGACCAGGTGATAGGATCAAGCTTTCTAATGAATAGTTTTAGAGCAACTACGGACTTTCCTCAGTTACGTTTCTTTCTTTTTCAGTATCCGAGAAACTGAGTAGATAGGTTGGCATTTTGGGTATCTCTAGAATTTTAAGGTTTTGAGAAGCTGAGACTATAGCCACTAGACAATGGAGCTTTTAAACGTGTCTTTTATTCTTATACAATTGATAAAACTCTCTAGGCTTTCACGCATATCTTTTTGGTGATGTTCGTAGAATGTAGTTCAGATGAGGTCCACATGTGCTGGAGTTTATATTCACCCTAGTTTATACTTAGATGGTGGTGAGCCTAATGTGTCTCTGCATTTCCCACCTCCTCGTTCTTATAAAAATGTCACCCAATTCTAAAGTAATGTATTGATGCTCAGTTCAATAAGAATGATAATAGTTGTCATAGACTAACACCCCAGGATCACTAATAGCCCTTTCTAAGAAAATGCCACAGGGAGATATCCTTTGAAACCTGACTGAAACTTTTCCCCGTAGCAAACCACTCACCTGACTCTTGTTCATAACTAGTGGTAGAAATCTGCCTATGCACATAAGATATGAAGTAAAACACAGCTGGATCATTTTGTTAGAGTTCAGATAAAGTGACCATCACACAGCAGATAATTGAGTGATGAACCAGACATAAAATGGAATTCCCCAGTTCATTGGACTTAAGGATCATTGTAAATAACTTCTGGTCACAATGAAGGCCGAGGAATAAAAGGAAGAATACACTGAACTCTGATTTTCATATGTGCTCTGTCTCGTTTTAGCACTTTATTTTTAAAAATTGTTCACTGGTTGTCACTTGCTATTTAGGGCACATTGCTTTAGGAATTAAGTCATTTACTTTGGGAGGGTGAGAATGCTTGGTATGGGTAGTAATGACCCGAGGTAATGCCCTCCTTAGTTTGGCAAATACAAGCACTGTGCATCTTGGGTACTTAACTTTACACGAGCCATTCAAGTTGGTGAGCTGCAGTACCATGCAGGGCCATGGTGTGTGGCCAACTCCATTCAGTGACAGGTTTATTGGGATGACTGCCTTACCTGATGGATGTGTGCAAACCTTTCCAAGTAGTTGTACTAAGTAGACTGAGAGGGTATGTCAAAGTAGAATAGTTTTTATTCTACTTCTTCAGCATGTTGTGAAACATTCTGATGTGACAGAATTTTGCATTTTAATTCATTTATTCATTTTCTATATCTCTTTCCTTTCTTGCTAGATATTTTATAGTATTAAGTGAATGAGAGATTCCCTTTATAACCATAAATAGAGTTAGCAAAACTCTTTCTTCTGTATGGTAAATGGACTCAGTACCAATTCTAGCTTTTACAGTTCAATCCTAATTTCATTGCTCATCTCATTTATGGTCTCATTTATTTGTCTTAAAAG
Seq C2 exon
GAAATATTATATGTATGGAATGAACCTAAGTGGTGCATTAAAGGAATTTCTTTGCCCGAAAAGAAGTTGTCAACCTGCGAAACTGTTGACTTTTGGCTGAAAGTGGGAGCTGGTGTGGGCGCGTTCACAGCCGTTTTGTTGGTGGCTTTAACATGCTACTTTTGGAAAAAGAATCAAAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000056004:ENSMUST00000069538:19
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=0.000
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
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