MmuINT0172063 @ mm10
Intron Retention
Gene
ENSMUSG00000039046 | Usp6nl
Description
USP6 N-terminal like [Source:MGI Symbol;Acc:MGI:2138893]
Coordinates
chr2:6427712-6430578:+
Coord C1 exon
chr2:6427712-6427811
Coord A exon
chr2:6427812-6430425
Coord C2 exon
chr2:6430426-6430578
Length
2614 bp
Sequences
Splice sites
5' ss Seq
AAAGTAAGG
5' ss Score
6.6
3' ss Seq
TTTCTCTCCTCCTTTCTCAGAGC
3' ss Score
11.51
Exon sequences
Seq C1 exon
ACTCCCTTCAGGCTGAACCTCAGGATATGGGACATCTATATCTTTGAAGGAGAGCGAGTCCTTACTGCTATGTCTTACACAATCTTGAAACTACACAAAA
Seq A exon
GTAAGGAAGCCTCTGGCTTAAAAGGCTTTATAAACTCAGGGCTTGTTGTGATGCTGACTGGCCTGGCCTCCCGCTGCCTCAGGCTGTGCTTTCTGACTGGCCTGGCCTCCCGCTGCCTCAGGCTGTGCTTTTAGCAGGGTTGGTTTTGTTTTTGTTTTTTGTGTTTTTTTTTGAAAACTACTAGTCTTTTTAAGTGTTTTTTTTTTTTTCTTGAGAGTCAGCAGAGAACTCCTGCTTCTCTCTCAGGAGAGAGACACTACATCAGAAAAGACCTTGGGCTCCTCCCTCCAGGTGCCAGTTCTGCCTTCACACTCAAACACTAGAATGCTGAGTTTAGTGTCACTGAGAATATTCTTCTCAAGTGTTAGTTTCCACTGGGACCCTCATTCTTTTAACTGATCTGTCTCCTAGGTAAATGAGTGGGAAAATGTCTTGTTACTGTTTATTTCTCTAACTCTGGGAGAACTTGAGTGTCAGGGTCTCTGGAGTAACAGGGACAGATGCATCAAGTCTCTCCCTGCATAAATGCAGGTTTTCAAAACAAAAACTAGAGGCTTTTTAGTCTTCAGTTACAGTATTTCAGGAGCTCTGTTGGTATGATGTGTTGGACCTCAAAAGCCAGCAAATGAGGTTTTCTATCATTTTCATTTCAAACTTAAGCCTTGTAGCTCTATAGAGGTATGGCTCATGGATAGCCTAGACCTTAATGTTGTGTGTCCCCCACACTTACTGTGTACCCTGCCCTCGTACGTCATTCTTAAATGATTTGTTCAGCATTCTGAGTTGAGGGCATTGTCAAGTTTACGATTTGTGTTCCTGCTGTTCCTGGCCACACTCGGTGCTCTCGGTGAGACTGCCTGGTCACTGACTTGAGTGCAGTGAGCACAGTAGAAACTCATTAGCCGCACTTCCTCTGAGATGAGACCTCAGTGTTTGTGACTTTCCAGGGAAGCTGTCAGAAATGTTGTGTTCGTGGCCAGCATACAGGCTAACACACCGACACAAAGCATTGGTGACACAGCTCCTTTCTGGAGTCCGGTTGTGTCGGCCCTGGGTGAAAGCCCCTTTCTCCTTCTCTTCTGCTTCTCCTTCTTTCTTTATATCACTACTCTTGACGTCGGTTATAAACAGGTCAAAATATACTAAAGAAGTGTATCTTAATTAAATAATAATGTAATGGTCCCCGGACAGCGAACGTGGACTGTGTGTTGTTTCTTTATAGTTCTCCTCCCTTTAAACTATTTACTTCGTCTCACTCTTTACCCCTTGAACTTTGAGCACAGCAACTACTTTACCTGCCAGTAAATTGTTAAACTGTATAAGCTGTGGAAATTGTTAAACTGTATAAGCTGTGGGAAACCCTGCCTGCTGTTCAGTCTGTTTCCTGTTTAAGAAGCAAAGCTCTCAGGTGTTCAGTGGGTTTTCTGTACCACCATATGAAGAAGTGTTGAGGAACACGGGGCACAGAGATGTTGCTCTCGGGCTACAAAGTTTCTCTTAGTGACAGAATACATTTTGGAAGTGTACTGTGTGGATTGGTGAGCATAGTTATGTATAACGTAACTGAAAGTTACTAAGAGCAGATTTTAAATGACTTCCTCCACAAAAGTAAGTATGCTTGGTGGTAGATCTAATAGTCACACTGAAGTAGTCATTCCACAGTGGGGAACCTGTATTAAAACACTGTAGTTTGCCATAAGGTTTCATACTACGTCATTTGCTGATTAAAAAAAAATAGATAACAATACAGAAAAGGAAAAAGGAAAAAACAAAACAAAACAAAACAAAACACTCTCTGGGTGCTTAACAGCTGAATATAGCCAAAGACTTTTTTCTGTCTTTATTTCTTCCTGATTGCTTTAAAGCTAGTATTACTGGAGATTCATCACACAATGGTTCTAAATGGGAAAACTGGAAACAAATGTAAATGCACGTGATTGGACTAAACAAGCACTAATGCTGCTCAGTTACGCCTCTGTTAATAATAGCTGAGAAAGAATGTGCGTTTGCTTTTCAATAGAAGAGGGAAGGTGAGCCCAGACTGTGCACTTGTATTGTGAGTTGATGCCCATGGACAGCCATGAACATAACGCTTCTCCTTGTAAGGTATGGGACTGCTAGCTAAGGTAGTGGGTGTCTACTTTCTCCTCTCTGTCTGTAGTTTGATTTTTTTTTCCTAATAAAATTAATTTCCTCAGTAGTAATAATAAGGTTAATAATCTGGTTTTGAGGGAAAGTTTCTAATACTAAGTGTGGAGTTAAAAAAGGCTTGTCAGTCTGAGATAGAGTTCTAGATAGTCTATGAGATAAATAAATGTTTATTGACTCCTAGGAGCTCTTGCTGTAGATTACTGTTAATACCAAGGCATGGTTACTCTTAAACCAGTGAGAAAATACTTGGTCATGTACACCTTTCTTCTCCTACTGGTTTTTCTAAGGTCAAAATATTATCCTACTGAGTTTTAATGATGTCCACAATGTGAAATGTAAGGTGTGTGTGTGTGTCCTCTTTAGTACCCTTTTTAAAAACACACTATACTCAACTACAGTCTATCTCTCTTCAGCCTAAGTAGCACTGTTGACCGGCATTTACGTTTCTCTCCTCCTTTCTCAG
Seq C2 exon
AGCATCTGATGAAGTTGTCTATGGAAGAACTTGTAGAATTTCTTCAGGAGACTCTCGCCAAGGATTTTTTCTTCGAGGATGATTTTGTAATAGAGCAACTTCAAGTTTCTATGGCAGAACTAAAGCGGGCAAAGTTAGATCTCCCAGAGCCTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000039046:ENSMUST00000114937:13
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=0.154
Domain overlap (PFAM):
C1:
PF0056613=RabGAP-TBC=FE(15.7=100)
A:
NA
C2:
PF0056613=RabGAP-TBC=PD(1.4=5.8)
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