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Usb1 U6 snRNA biogenesis 1 [ Mus musculus (house mouse) ]

Gene ID: 101985, updated on 6-Jun-2024

Summary

Official Symbol
Usb1provided by MGI
Official Full Name
U6 snRNA biogenesis 1provided by MGI
Primary source
MGI:MGI:2142454
See related
Ensembl:ENSMUSG00000031792 AllianceGenome:MGI:2142454
Gene type
protein coding
RefSeq status
VALIDATED
Organism
Mus musculus
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Mus; Mus
Summary
Predicted to enable poly(U)-specific exoribonuclease activity, producing 3' uridine cyclic phosphate ends. Predicted to be involved in RNA splicing and U6 snRNA 3'-end processing. Predicted to be located in intercellular bridge and nucleoplasm. Predicted to be active in nucleus. Human ortholog(s) of this gene implicated in poikiloderma with neutropenia. Orthologous to human USB1 (U6 snRNA biogenesis phosphodiesterase 1). [provided by Alliance of Genome Resources, Apr 2022]
Expression
Ubiquitous expression in thymus adult (RPKM 14.6), ovary adult (RPKM 13.9) and 28 other tissues See more
Orthologs
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Genomic context

See Usb1 in Genome Data Viewer
Location:
8 C5; 8 47.12 cM
Exon count:
8
Annotation release Status Assembly Chr Location
RS_2024_02 current GRCm39 (GCF_000001635.27) 8 NC_000074.7 (96058006..96074137)
108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) 8 NC_000074.6 (95331413..95347513)

Chromosome 8 - NC_000074.7Genomic Context describing neighboring genes Neighboring gene microtubule-associated protein 1 light chain 3 pseudogene copy 6 Neighboring gene sperm microtubule inner protein 8 Neighboring gene STARR-positive B cell enhancer ABC_E8259 Neighboring gene zinc finger protein 319 Neighboring gene matrix metallopeptidase 15 Neighboring gene VISTA enhancer mm71 Neighboring gene cilia and flagella associated protein 20 Neighboring gene STARR-positive B cell enhancer ABC_E245

Genomic regions, transcripts, and products

Expression

  • Project title: Mouse ENCODE transcriptome data
  • Description: RNA profiling data sets generated by the Mouse ENCODE project.
  • BioProject: PRJNA66167
  • Publication: PMID 25409824
  • Analysis date: n/a

Variation

Alleles

Alleles of this type are documented at Mouse Genome Informatics  (MGI)
  • Endonuclease-mediated (3) 

General gene information

Markers

Gene Ontology Provided by MGI

Function Evidence Code Pubs
enables 3'-5'-RNA exonuclease activity IBA
Inferred from Biological aspect of Ancestor
more info
 
enables 3'-5'-RNA exonuclease activity ISO
Inferred from Sequence Orthology
more info
 
enables hydrolase activity IEA
Inferred from Electronic Annotation
more info
 
enables lyase activity IEA
Inferred from Electronic Annotation
more info
 
enables nuclease activity IEA
Inferred from Electronic Annotation
more info
 
enables poly(U)-specific exoribonuclease activity, producing 3' uridine cyclic phosphate ends ISO
Inferred from Sequence Orthology
more info
 
Process Evidence Code Pubs
involved_in RNA splicing ISO
Inferred from Sequence Orthology
more info
 
involved_in U6 snRNA 3'-end processing IBA
Inferred from Biological aspect of Ancestor
more info
 
involved_in U6 snRNA 3'-end processing ISO
Inferred from Sequence Orthology
more info
 
involved_in snRNA 3'-end processing ISO
Inferred from Sequence Orthology
more info
 
Component Evidence Code Pubs
located_in intercellular bridge ISO
Inferred from Sequence Orthology
more info
 
located_in nucleoplasm ISO
Inferred from Sequence Orthology
more info
 
is_active_in nucleus IBA
Inferred from Biological aspect of Ancestor
more info
 
located_in nucleus ISO
Inferred from Sequence Orthology
more info
 

General protein information

Preferred Names
U6 snRNA phosphodiesterase 1
Names
3'-5' RNA exonuclease USB1
U6 snRNA phosphodiesterase
UPF0406 protein C16orf57 homolog
putative U6 snRNA phosphodiesterase
NP_001413481.1
NP_001413482.1
NP_598715.2
XP_017167985.1

NCBI Reference Sequences (RefSeq)

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RefSeqs maintained independently of Annotated Genomes

These reference sequences exist independently of genome builds. Explain

These reference sequences are curated independently of the genome annotation cycle, so their versions may not match the RefSeq versions in the current genome build. Identify version mismatches by comparing the version of the RefSeq in this section to the one reported in Genomic regions, transcripts, and products above.

mRNA and Protein(s)

  1. NM_001426552.1NP_001413481.1  U6 snRNA phosphodiesterase 1 isoform 2

    Status: VALIDATED

    Source sequence(s)
    AC165414
    UniProtKB/Swiss-Prot
    Q3TU91, Q91W78
  2. NM_001426553.1NP_001413482.1  U6 snRNA phosphodiesterase 1 isoform 3

    Status: VALIDATED

    Source sequence(s)
    AC165414
    UniProtKB/Swiss-Prot
    Q3TU91, Q91W78
  3. NM_133954.3NP_598715.2  U6 snRNA phosphodiesterase 1 isoform 1

    See identical proteins and their annotated locations for NP_598715.2

    Status: VALIDATED

    Source sequence(s)
    AC165414
    Consensus CDS
    CCDS22560.1
    UniProtKB/Swiss-Prot
    Q3TU91, Q91W78
    UniProtKB/TrEMBL
    A0A0R4J0E0
    Related
    ENSMUSP00000034245.9, ENSMUST00000034245.16
    Conserved Domains (1) summary
    pfam09749
    Location:45265
    HVSL; Uncharacterized conserved protein

RefSeqs of Annotated Genomes: GCF_000001635.27-RS_2024_02

The following sections contain reference sequences that belong to a specific genome build. Explain

Reference GRCm39 C57BL/6J

Genomic

  1. NC_000074.7 Reference GRCm39 C57BL/6J

    Range
    96058006..96074137
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_017312496.3XP_017167985.1  U6 snRNA phosphodiesterase 1 isoform X1

    UniProtKB/Swiss-Prot
    Q3TU91, Q91W78
    UniProtKB/TrEMBL
    A0A0R4J0E0
    Conserved Domains (1) summary
    pfam09749
    Location:45265
    HVSL; Uncharacterized conserved protein