MmuINT0172069 @ mm9
Intron Retention
Gene
ENSMUSG00000039046 | Usp6nl
Description
USP6 N-terminal like [Source:MGI Symbol;Acc:MGI:2138893]
Coordinates
chr2:6329975-6336086:+
Coord C1 exon
chr2:6329975-6330055
Coord A exon
chr2:6330056-6335978
Coord C2 exon
chr2:6335979-6336086
Length
5923 bp
Sequences
Splice sites
5' ss Seq
AAGGTATGC
5' ss Score
9.55
3' ss Seq
GTTTCCTTTGTTTTAACCAGTTT
3' ss Score
7.46
Exon sequences
Seq C1 exon
CAAAAGCAACTGGAAATCGAAAGGACTTCCAAGTGGCTGAAAATGCTGAAAAAATGGGAGAGATACAAGAACACCGAGAAG
Seq A exon
GTATGCACGGGTCGGGCTTTGTCCTTCCGTATTCCAAGGCTTACCTCTGTGCTCACATGTGAGGTTTTAGTTTACTGAGGCCTAACGTTTGATCTTAGAAGTCTTCCTGTTGGAAATAGTAGAATCCCTAGTTGAGAGTGGCTCCAACTGTCTGAGCTAAGCTGCCTGCATGGTGCAGAGGCAGAGTTTAGAGTGCCACTGGGTTCAGCTGCTCTGCTGGGTCGGGGTGTCCCCTGCCTCTGCTCTGGCTCTGCCCTGGGGTCAGACATTGCTGTAGTTCCAGACTTCACATCCACATCCTGTTGCTCAGGAGAGGGCTTGCCTTTGGACACTTTTCTAGAAGCAGGAGTGTTCTCCTTTCCAGAGCTCTCGGGAACCCTCCTTTTGGTCTGCACTGAATCCATGCTAAGTTTTAACCCAAGCATTGGAATGGGGGCAGGGGTAGGGAGCTGGGGAGCGGCAGGGACCACAGATCCCTTGTGCGAGCCTGATGATCTGCCTCGTATCCTCAGAGCCACATAAATAAAGCTGTCCTCACATGGCCACAGGAGGCCCGCAGCATGCCTTTCAAGTTTGTTGTCAGGAGCAACACACACAGTGTATTTATTGTAAGGAAATGTCTGCCAAACCTGGCTCCAAATCTGAGCAGGCACAAAACTGCAGTCAGGTAGTTCTCTCAAGTATAATGGTGTTCTGTGAGATCAAGGAGGAGGTGCAAATTATTCTTCAAAACCCGAGGGAAATGCCTTTTTCTGAGTGACCATTGTATTGAGTGGCACAAACGCATTGCTGCAGCCTATGCCGGAGAGCTTAGAGTTTATTCACTTAGTGCATTCTGTGCTGCATCAGGACCCCTCCTGTGTGAACCTGATTTTCTAAAACATTGTAGAAAGTACAGTAGCGGGAGTAACCCAGGTAGCCCTATTGCCTTGTTCTGTGCCCAGTAGTTGGAGCTTCACTGCCATCTTTCTCTCCTGTCAGTGCAGAAATCACAGTGAAATGAAAGGCGACATGTGTCCATCCTTGGAAAATGGTTTTGGCCTTATGCTTGCAAACCACTGACATCTCACCTTCACATGAGTGATCTTCACAGACGTAATAAAGGTGGCTCTGCATCTAGCTCCTCCATGTGTACACAGGTGTGATTTTAAAGGGATAGGGCTCTGGGGGTCTGCTGGGCTAACCTTGGGAAAGTAGCATTAGCCTGGCCTGTAGACCACACCTAATAGATGCTAGCTAGCCGTGCAAAGTTTTTAAAAAAGAAAAAAATCCTATAGCAAAACAAGTAGCCAACTTTAGAGGAGTTTTTTTTTTTTTCCTATTTCTTTAGTCTTTAAATTTTAAAAATCACATTTATTTGGTGTCTGTATGTATATGGCCACAAATGTATTACAGTGTACATTTGGAGGTCAGAATACCATGTTGAAGAGTCGGTTCTCTTCTACCATATATGGGCGCTGGTTTTTTAAGTTAGGTTGTCAGGCTTGGCCACCTTTACCCGCTGAGCATGTCACTGGCCTGTATTTCTTTATACTGTTCCCATGAAATTACCCCCTCCCAAATACACACTTGTATAAATAGAATTCTATAGAACATCAGGTCTTTGGGTTTTCATAGCTCTGACATCTCTGGCAGCCTAGAGTGGAGTATCCTGGTTTTACACTCCAGCCTGTCAACAACTGTAACATCGGACAGCAGTAGTGGCTGTCTTTTAGAGTTGCTGTGAGGATTAAATAAACTAAATAATAAGCATTCAGTAAGTAAAGTGCCCAGGAAAGGCTGTGTCCTGGGGTTGGAGAAAATCAGAGCTCAGCAAAGTCCAATGAGGGCTCTTTATTACAGGACTCTTCAGTTTTTCATGAGGACTGTGCCCCGCCCTAAGAGGACACTAACCCACTGGGGAGATCTCCTGGTTGAGGGATACCTCACAGAGATATGTCACTTCGTTTTCTTGTTGAGCATCCCAAGTATCCTGATTTTAAAGTCAAACTCTTACATTTTATTTTACAGCAAAGTAAGTTCATTTTGTCTTGTTGAGTCTTTGTTTTAGCATTGGTTTTAGAACTTAAAATATTTTTAAAGGAATCACTTGAGAGTGGGGAATTAGGTGCAGCGTCTGTGCTCCTGCGCACACCCTCAGATCCACTCGCAGTGACAGCTCCTTCTCCTCTGAGGAAAGATCGTGGTTAGCGCAATGATAACAGGATATGCTTCTGAACGTCTCACCTACACTTTAGTGTCTCTCATTTAGTCTAATAAGGTATCTGTAGAATTGTATGGCTTTATGTTATTCTCCAGTATACAGGCATCTGTCGAAGTAAGTCAGTCTCTGTAAAGATGAGCACTTCTTTCCACTAGGCTATTACTTTGACAGCAACTCTGGCGAATGCAGTTCCCATTAAGAGGGATTTTAGCAGAACCATTTCTTTGATGTATAATTTTAAAGCACTCTTCCATAACTATGGTGGTAGAATCATTTGATAATATATATGGTCCAATTTGGTGTGGAAAAGAATGCACATTCTAAAAGAATTATCACCTTCAATTCATACATTAAATTGCACCGATACAAAAAGGTAACATTTTATTTTTGTTTCTTCCAAGAAAGAGGAAGGAATGTTTTCTCTTTGGAGTCCCAGCTCACATGGCAACAGTGCAGGAAGGTTCAAGATTGCCTTCATACAAACATGGTCTGGTAGAGACTATTTGGAGTCGTAGGGTGAAGCTTCGGCGAAAGCTTCCCGAGGGTTGTGTTGCCTGTGTTGTGTGCACAGTGCTGACCTGCCTCCATGGCGGGGGCTTTGTGTTTTTCCTTCCCTGTAGGTGTGAGATGTATGCTTGCATCACAAATGGCATTACCATTGGTCAGTAAACTGTGCCTAATGTTTTACAAACTTTCTAAAGCTTACGTGATGATTCACAAGATGAAGGAAAAATGTGCAGCCACAGCAAGTGCCTATAAGTGGCCAAGCATGGTCACCCCATAGCATCTGAGGGTCCGGGTTCCACAGTCCCCAGATACACTGTCCTCAGTCAGATGCGATGGTGTTTGTAAGGATCTGCGTGTGCTGTGAATACTTACTATGTAGTGTTGTGTAGACAGTGGCGACAAGGAAAATTGAGGCATTTGTATAAAATAGTTTTTCCTGGGTGACTTGGACCTGTGGCTAAGTCTGGAGATGTAGAACCGTGAATACTTATTTTAGAACATCAGCATTATTTTTCTGTTAAGTTTTTAGTGTGCACATTTGGTTGGATACCCTTTTTATTGTCTTCTTAAGTTCCATTATTTTACCATTGTTTTAATGTTATCCACTCTTGAATTTTAAGAACATTTTCAATCATTTTTCCATACATTTTAATAATTCTGACAAAACAGTATGCTGTGCTCCAGAAAGGATGATCTTTGATCTTTAGAAATACAAACTCACCCAGGGTGGGGAGGGGTAAGGAGGGGTGGGATGGTGGTGTACAACTTTAATCCCAGCACTCAGCATTCAGGAGGCAGAGGCAGGGGAATTTCAGGATTCAAGGCCAGCCTGATCTACAGAGCCAGTTCCAGAACAGACAGGGCTATACAGAGAAACCTTGTCTTGAAACACACACACACACACACACACACACACACACACACACACACACACACACACACACACACACTATTTATTTGTGTGTATGGATATGCTGTGGGAGAGGACAGAGTTGGCAGCAGTATTGCTCTCAGTCTCCTGGACCTTACTGCCTGTGTATAATGGGGTGTTGTACATGCAGATGTGCATTGTATGCTGGGAAATGAGATTTGGACTCTGCTGTTTTGCTTGGTCATTCTCACTGAGCCTGGCATTTGCCATTTAGCTAGGCTGGCTAAGCAGTGAGCTCCCACAGTCAGCTGTTCCATGGTGCTAGAGAGTTGAACTTCAGTCCTCACGTTTACACATCCAAGGCTCTCACCCACAGAGCCACCTTCCCATTGTCATGGCAGCCAGCCTCAAGTCAAGGCTTGACTTGGGTCATTTTGTTTTGCTCATACTAGAAATGTAACCTAGAGCCTTATGCATGCTAGGCAAGCATTCTCACTGAGCTCCAGCCCAGCCCTCACCTCATCGTTGGTACAGGCTCTCTGCCCCTGGCCTGGAGCTCATCAATTTATCTGATGTGGATAGCCAGCAACCCCTAGGGATTCTCCTGTCTGCCTCCCTGGCACTGGGATTATAGGCACATGTTACTGCACTGGGCTTTTACATAGGATCTTCCTTCTTTTAAATAGTTGGTAACATTTTAGGCTTATCACTGGGCAAGTTATTTATCTTCTTTGTGATTTACTTTCCATGTATGTACAGTTGAGTTGCTGGGATAATTAAATGGCATACACATATAGCAATGAGTTTAAAATCGTTTCCTATGTATAATGAATGCTTATGTATAGGAAACCAGGTCAGTTGGTACCATGGGCGAGGACATTGATAGTTTCCTGTGTATCGTGACTGCTTATGTGTAGTAAATGCATAGTGAGGACCAGGGTTAATTGGTACCGTGGGTAAGGACATTGACAACATGTCAGTGCTTCTTTTGAGCACCGGCTCTCGATAGACCATTGGGTTTTTATTTCTTTCTGGCGTATTCTTGCTTTTTTTTTTCTCTTGCTTTAACAGTGACAACTTGATTCCCCAAAATTGGAAATGCTGTAGAATCCAAACCTTTGTTGTATTCACAGGATACTACAAGTAGACAGTTCCACACCTGGTCTTATTGTGACAGGTCACAGGGTACTACAAATAAGACAGTTCCATACCTGGTCACAGTCAAACCACTGACGATATTACCTGAAGGTTCTGGGTGTGGTGGTACAAACTTACAGTCAGGTCTGGGGAGGTTCCAAGAGGTGGATCCCTGGGACTTCCTGCTCAGTCAGCCTAGCCTACCTGGCAAGTGCCAGGCCAACTGCTTCAAAAGATGAAAGTAAACAGTACTTGAAGAATCATGAATATCACCTATGCTGTTTGGCCTTTGCTTACAGATGTATAAGATAGGTCTACACACATGTACCCACCCCTCCCAAACACGCACACACACACACACACACATGTGCACACACACACACACCCTTCCAACTTATTTCTCTAAGTTGTATATGAAACAAAAGAATGTAGTGCTTAGACTTGGGTTTCATCCTAGATACGTCATTAGGTATAAACAAGTGTCGCAAAGTCTAAAGAAATATGTAAAATCCCAAACTCTCCTTAAAGGCTCCTGCCATAATTTATCAATCTTTTCTTAGTTTGTCTGTGCACTTTAACATTTCAAAGTGTTGTTATGTACCACATTGTAATGACCCTGATACTTATTTTGAGTGGACTGTAAATACATAATTATATAAGAGAGGGACGTCTGTTGAGCCTTAAGTTCTTGGGGTAATTGCATGCATATTTCAAGGACCTCCTATGACTGACCATGGCTACTTAGGTGCCTATTTCTTTGAGAATCAGCGTTTTGGCTGAGGATGCAGCTCAGCAGTAGAGAGCCCTTGCCCACCATGTGCACAGACATTCCCCACACAGTTGCGGAAGGAGTAGGAGTCCTTGTCTTCTTTTGATGGAGATTTGCCCACTGTTTTTTTTCTGGCCAGATGGGGTTCGTGCCATTTCCACAAAGGGATGGAGGGTAGGACTGGCTGAGGCCTGAGGTGGTGCTCCAGGGAGGTGGTGTTGGGAAAGAGGTTACCAGTGCGTTCTGCACTCCTTGAGGGGAAGGTCGTGTATAACAAGGAAATGTGTAAGTAAGATGTTTCCAGTTTACCAATAGAATCGGTTCTGCTCTTGCAACTCTAAGGGGCACTTCTGTAATAGTCAAGTGGCTCAGTGGAAGGGACTGTCTAAGCTTTTGTCTCTTTGTAACCTTGTCTAGTTTCCTTTGTTTTAACCAG
Seq C2 exon
TTTCATCGACGAATTTACAAAGGAATTCCACTCCAGCTCCGAGGTGAAGTCTGGGCTCTTCTTCTTGAGATCCCTAAAATGAAAGAAGAAACAAGAGACCTTTATAGT
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000039046-Usp6nl:NM_001080548:6
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.012 A=NA C2=0.000
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF0056613=RabGAP-TBC=PU(11.9=69.4)
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
- Muscular differentiation time course
- Spermatogenesis cell types
- Reprogramming of fibroblasts to iPSCs
- Hematopoietic precursors and cell types
Other AS DBs: