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Ssbp3 single-stranded DNA binding protein 3 [ Mus musculus (house mouse) ]

Gene ID: 72475, updated on 5-Jan-2023

Summary

Official Symbol
Ssbp3provided by MGI
Official Full Name
single-stranded DNA binding protein 3provided by MGI
Primary source
MGI:MGI:1919725
See related
Ensembl:ENSMUSG00000061887 AllianceGenome:MGI:1919725
Gene type
protein coding
RefSeq status
REVIEWED
Organism
Mus musculus
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Mus; Mus
Also known as
LAST; SSDP1; 2610021L12Rik; 2610200M23Rik; 5730488C10Rik
Summary
This gene encodes a member of the Ssdp (sequence-specific single-stranded DNA binding protein) family of proteins. The encoded protein binds specifically to single-stranded pyrimidine-rich DNA elements. The encoded protein has been shown to be important for head development and may play a role in the differentiation of spinal interneurons. Alternative splicing results in multiple transcript variants. [provided by RefSeq, Apr 2015]
Expression
Ubiquitous expression in whole brain E14.5 (RPKM 48.2), CNS E14 (RPKM 47.8) and 28 other tissues See more
Orthologs
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Genomic context

See Ssbp3 in Genome Data Viewer
Location:
4; 4 C7
Exon count:
20
Annotation release Status Assembly Chr Location
109 current GRCm39 (GCF_000001635.27) 4 NC_000070.7 (106768667..106906891)
108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) 4 NC_000070.6 (106911470..107049694)

Chromosome 4 - NC_000070.7Genomic Context describing neighboring genes Neighboring gene VISTA enhancer mm1527 Neighboring gene predicted gene, 52672 Neighboring gene VISTA enhancer mm1261 Neighboring gene mitochondrial ribosomal protein L37 Neighboring gene cytochrome b5 reductase-like Neighboring gene CUB domain containing protein 2

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

Bibliography

GeneRIFs: Gene References Into Functions

What's a GeneRIF?

Variation

Alleles

Alleles of this type are documented at Mouse Genome Informatics  (MGI)

Interactions

Products Interactant Other Gene Complex Source Pubs Description

General gene information

Markers

Homology

Gene Ontology Provided by MGI

Function Evidence Code Pubs
enables DNA binding IEA
Inferred from Electronic Annotation
more info
 
enables protein binding IPI
Inferred from Physical Interaction
more info
PubMed 
enables single-stranded DNA binding ISO
Inferred from Sequence Orthology
more info
PubMed 
enables transcription coactivator activity IDA
Inferred from Direct Assay
more info
PubMed 
Process Evidence Code Pubs
acts_upstream_of_or_within cell differentiation TAS
Traceable Author Statement
more info
PubMed 
involved_in head development IGI
Inferred from Genetic Interaction
more info
PubMed 
involved_in head morphogenesis IMP
Inferred from Mutant Phenotype
more info
PubMed 
acts_upstream_of_or_within hematopoietic progenitor cell differentiation IMP
Inferred from Mutant Phenotype
more info
PubMed 
acts_upstream_of mesendoderm development IMP
Inferred from Mutant Phenotype
more info
PubMed 
involved_in midbrain-hindbrain boundary initiation IMP
Inferred from Mutant Phenotype
more info
PubMed 
involved_in positive regulation of DNA-templated transcription IMP
Inferred from Mutant Phenotype
more info
PubMed 
involved_in positive regulation of anterior head development IMP
Inferred from Mutant Phenotype
more info
PubMed 
involved_in positive regulation of cell population proliferation IMP
Inferred from Mutant Phenotype
more info
PubMed 
involved_in positive regulation of transcription by RNA polymerase II IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
involved_in positive regulation of transcription by RNA polymerase II IDA
Inferred from Direct Assay
more info
PubMed 
acts_upstream_of_or_within positive regulation of transcription by RNA polymerase II IGI
Inferred from Genetic Interaction
more info
PubMed 
involved_in prechordal plate formation IMP
Inferred from Mutant Phenotype
more info
PubMed 
involved_in protein-containing complex assembly IMP
Inferred from Mutant Phenotype
more info
PubMed 
Component Evidence Code Pubs
is_active_in nucleus IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
part_of protein-containing complex IDA
Inferred from Direct Assay
more info
PubMed 
part_of transcription regulator complex IDA
Inferred from Direct Assay
more info
PubMed 

General protein information

Preferred Names
single-stranded DNA-binding protein 3
Names
Lck-associated signal transducer
sequence-specific single-stranded-DNA-binding protein

NCBI Reference Sequences (RefSeq)

NEW Try the new Transcript table

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_001355532.1NP_001342461.1  single-stranded DNA-binding protein 3 isoform c

    Status: REVIEWED

    Source sequence(s)
    AI854733, AK011853, AK017711, AL607132, BB618782, BB842651, CO429463, CX200383
    Conserved Domains (1) summary
    pfam04503
    Location:1255
    SSDP; Single-stranded DNA binding protein, SSDP
  2. NM_023672.2NP_076161.2  single-stranded DNA-binding protein 3 isoform a

    See identical proteins and their annotated locations for NP_076161.2

    Status: REVIEWED

    Description
    Transcript Variant: This variant (1) represents the longer transcript and encodes the longer isoform (a).
    Source sequence(s)
    AI854733, AK011853, AK017711, CO429463, CX200383
    Consensus CDS
    CCDS18427.1
    UniProtKB/Swiss-Prot
    Q9D032, Q9EQP3
    UniProtKB/TrEMBL
    A0A6P5PNX3, A0A8C6H7W3
    Related
    ENSMUSP00000030367.9, ENSMUST00000030367.15
    Conserved Domains (2) summary
    smart00667
    Location:1743
    LisH; Lissencephaly type-1-like homology motif
    pfam04503
    Location:81365
    SSDP; Single-stranded DNA binding protein, SSDP
  3. NM_198438.1NP_940840.1  single-stranded DNA-binding protein 3 isoform b

    See identical proteins and their annotated locations for NP_940840.1

    Status: REVIEWED

    Description
    Transcript Variant: This variant (2) lacks an alternate in-frame exon in the 5' coding region, compared to variant 1. The encoded isoform (b) is shorter than isoform a.
    Source sequence(s)
    AI854733, AK011853, AK017711, AK153733, CO429463, CX200383
    Consensus CDS
    CCDS18428.1
    UniProtKB/Swiss-Prot
    Q9D032
    UniProtKB/TrEMBL
    A0A6P5PHV2, Q3U5B9
    Related
    ENSMUSP00000072536.7, ENSMUST00000072753.13
    Conserved Domains (2) summary
    smart00667
    Location:1743
    LisH; Lissencephaly type-1-like homology motif
    pfam04503
    Location:81338
    SSDP; Single-stranded DNA binding protein, SSDP

RefSeqs of Annotated Genomes: Mus musculus Annotation Release 109 details...Open this link in a new tab

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

Reference GRCm39 C57BL/6J

Genomic

  1. NC_000070.7 Reference GRCm39 C57BL/6J

    Range
    106768667..106906891
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_006503415.4XP_006503478.1  single-stranded DNA-binding protein 3 isoform X5

    See identical proteins and their annotated locations for XP_006503478.1

    Conserved Domains (2) summary
    smart00667
    Location:1743
    LisH; Lissencephaly type-1-like homology motif
    pfam04503
    Location:81352
    SSDP; Single-stranded DNA binding protein, SSDP
  2. XM_006503411.4XP_006503474.1  single-stranded DNA-binding protein 3 isoform X1

    See identical proteins and their annotated locations for XP_006503474.1

    Conserved Domains (2) summary
    smart00667
    Location:1743
    LisH; Lissencephaly type-1-like homology motif
    pfam04503
    Location:81387
    SSDP; Single-stranded DNA binding protein, SSDP
  3. XM_006503413.4XP_006503476.1  single-stranded DNA-binding protein 3 isoform X3

    See identical proteins and their annotated locations for XP_006503476.1

    UniProtKB/TrEMBL
    A0A6P7QZZ6
    Conserved Domains (2) summary
    smart00667
    Location:1743
    LisH; Lissencephaly type-1-like homology motif
    pfam04503
    Location:81373
    SSDP; Single-stranded DNA binding protein, SSDP
  4. XM_006503412.4XP_006503475.1  single-stranded DNA-binding protein 3 isoform X2

    See identical proteins and their annotated locations for XP_006503475.1

    Conserved Domains (2) summary
    smart00667
    Location:1743
    LisH; Lissencephaly type-1-like homology motif
    pfam04503
    Location:81379
    SSDP; Single-stranded DNA binding protein, SSDP
  5. XM_006503414.4XP_006503477.1  single-stranded DNA-binding protein 3 isoform X4

    See identical proteins and their annotated locations for XP_006503477.1

    Conserved Domains (2) summary
    smart00667
    Location:1743
    LisH; Lissencephaly type-1-like homology motif
    pfam04503
    Location:81360
    SSDP; Single-stranded DNA binding protein, SSDP
  6. XM_006503416.4XP_006503479.1  single-stranded DNA-binding protein 3 isoform X6

    See identical proteins and their annotated locations for XP_006503479.1

    UniProtKB/TrEMBL
    A0A6P7R6F5
    Conserved Domains (2) summary
    smart00667
    Location:1743
    LisH; Lissencephaly type-1-like homology motif
    pfam04503
    Location:81346
    SSDP; Single-stranded DNA binding protein, SSDP
  7. XM_006503417.5XP_006503480.1  single-stranded DNA-binding protein 3 isoform X7

    Conserved Domains (1) summary
    pfam04503
    Location:1277
    SSDP; Single-stranded DNA binding protein, SSDP
  8. XM_006503420.4XP_006503483.1  single-stranded DNA-binding protein 3 isoform X9

    Conserved Domains (1) summary
    pfam04503
    Location:12250
    SSDP; Single-stranded DNA binding protein, SSDP
  9. XM_036164459.1XP_036020352.1  single-stranded DNA-binding protein 3 isoform X8

    Conserved Domains (1) summary
    pfam04503
    Location:4250
    SSDP; Single-stranded DNA binding protein, SSDP