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SSBP3 single stranded DNA binding protein 3 [ Homo sapiens (human) ]

Gene ID: 23648, updated on 26-Oct-2022

Summary

Official Symbol
SSBP3provided by HGNC
Official Full Name
single stranded DNA binding protein 3provided by HGNC
Primary source
HGNC:HGNC:15674
See related
Ensembl:ENSG00000157216 MIM:607390; AllianceGenome:HGNC:15674
Gene type
protein coding
RefSeq status
VALIDATED
Organism
Homo sapiens
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; Catarrhini; Hominidae; Homo
Also known as
CSDP; SSDP; SSDP1
Summary
Predicted to enable single-stranded DNA binding activity and transcription coactivator activity. Predicted to be involved in head development and positive regulation of transcription by RNA polymerase II. Predicted to act upstream of or within hematopoietic progenitor cell differentiation. Predicted to be part of protein-containing complex. Predicted to be active in nucleus. [provided by Alliance of Genome Resources, Apr 2022]
Expression
Ubiquitous expression in ovary (RPKM 35.7), brain (RPKM 22.6) and 24 other tissues See more
Orthologs
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Genomic context

See SSBP3 in Genome Data Viewer
Location:
1p32.3
Exon count:
23
Annotation release Status Assembly Chr Location
110 current GRCh38.p14 (GCF_000001405.40) 1 NC_000001.11 (54225432..54413490, complement)
110 current T2T-CHM13v2.0 (GCF_009914755.1) 1 NC_060925.1 (54108317..54296354, complement)
105.20220307 previous assembly GRCh37.p13 (GCF_000001405.25) 1 NC_000001.10 (54691105..54879163, complement)

Chromosome 1 - NC_000001.11Genomic Context describing neighboring genes Neighboring gene CUB domain containing protein 2 Neighboring gene cytochrome b5 reductase like Neighboring gene mitochondrial ribosomal protein L37 Neighboring gene SSBP3 antisense RNA 1 Neighboring gene Sharpr-MPRA regulatory region 4453 Neighboring gene VISTA enhancer hs1487 Neighboring gene Sharpr-MPRA regulatory region 12771

Genomic regions, transcripts, and products

Expression

  • Project title: HPA RNA-seq normal tissues
  • Description: RNA-seq was performed of tissue samples from 95 human individuals representing 27 different tissues in order to determine tissue-specificity of all protein-coding genes
  • BioProject: PRJEB4337
  • Publication: PMID 24309898
  • Analysis date: Wed Apr 4 07:08:55 2018

Bibliography

GeneRIFs: Gene References Into Functions

What's a GeneRIF?

Interactions

Products Interactant Other Gene Complex Source Pubs Description

General gene information

Markers

Homology

Clone Names

  • FLJ10355

Gene Ontology Provided by GOA

Function Evidence Code Pubs
enables protein binding IPI
Inferred from Physical Interaction
more info
PubMed 
enables single-stranded DNA binding IEA
Inferred from Electronic Annotation
more info
 
enables transcription coactivator activity IEA
Inferred from Electronic Annotation
more info
 
Process Evidence Code Pubs
involved_in head morphogenesis IEA
Inferred from Electronic Annotation
more info
 
involved_in hematopoietic progenitor cell differentiation IEA
Inferred from Electronic Annotation
more info
 
involved_in mesendoderm development IEA
Inferred from Electronic Annotation
more info
 
involved_in midbrain-hindbrain boundary initiation IEA
Inferred from Electronic Annotation
more info
 
involved_in positive regulation of anterior head development IEA
Inferred from Electronic Annotation
more info
 
involved_in positive regulation of cell population proliferation IEA
Inferred from Electronic Annotation
more info
 
involved_in positive regulation of transcription by RNA polymerase II IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
involved_in prechordal plate formation IEA
Inferred from Electronic Annotation
more info
 
involved_in protein-containing complex assembly IEA
Inferred from Electronic Annotation
more info
 
Component Evidence Code Pubs
is_active_in nucleus IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
part_of transcription regulator complex IEA
Inferred from Electronic Annotation
more info
 

General protein information

Preferred Names
single-stranded DNA-binding protein 3
Names
sequence-specific single-stranded-DNA-binding protein

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_001009955.4NP_001009955.1  single-stranded DNA-binding protein 3 isoform c

    See identical proteins and their annotated locations for NP_001009955.1

    Status: VALIDATED

    Description
    Transcript Variant: This variant (3) lacks an alternate in-frame exon, compared to variant 1. The encoded isoform (c) is shorter than isoform a.
    Source sequence(s)
    AL035415, AL161644, BC066365, BF060746, BQ051652, DN602300
    Consensus CDS
    CCDS30726.1
    UniProtKB/Swiss-Prot
    Q9BWW4
    Related
    ENSP00000360370.3, ENST00000371319.8
    Conserved Domains (2) summary
    smart00667
    Location:1743
    LisH; Lissencephaly type-1-like homology motif
    pfam04503
    Location:81338
    SSDP; Single-stranded DNA binding protein, SSDP
  2. NM_001394360.1NP_001381289.1  single-stranded DNA-binding protein 3 isoform d

    Status: VALIDATED

    Source sequence(s)
    AL035415, AL161644
    Conserved Domains (2) summary
    smart00667
    Location:1743
    LisH; Lissencephaly type-1-like homology motif
    pfam04503
    Location:81346
    SSDP; Single-stranded DNA binding protein, SSDP
  3. NM_001394361.1NP_001381290.1  single-stranded DNA-binding protein 3 isoofrm e

    Status: VALIDATED

    Source sequence(s)
    AL035415, AL161644
    Conserved Domains (1) summary
    TIGR01628
    Location:111215
    PABP-1234; polyadenylate binding protein, human types 1, 2, 3, 4 family
  4. NM_001394362.1NP_001381291.1  single-stranded DNA-binding protein 3 isosform f

    Status: VALIDATED

    Source sequence(s)
    AL035415, AL161644
    Conserved Domains (2) summary
    smart00667
    Location:1743
    LisH; Lissencephaly type-1-like homology motif
    pfam04503
    Location:81318
    SSDP; Single-stranded DNA binding protein, SSDP
  5. NM_001394363.1NP_001381292.1  single-stranded DNA-binding protein 3 isoform g

    Status: VALIDATED

    Source sequence(s)
    AL035415, AL161644
    Conserved Domains (1) summary
    smart00667
    Location:1743
    LisH; Lissencephaly type-1-like homology motif
  6. NM_001394364.1NP_001381293.1  single-stranded DNA-binding protein 3 isoform h

    Status: VALIDATED

    Source sequence(s)
    AL035415, AL161644
    Consensus CDS
    CCDS90961.1
    UniProtKB/TrEMBL
    Q9NW25
    Conserved Domains (1) summary
    pfam04503
    Location:1255
    SSDP; Single-stranded DNA binding protein, SSDP
  7. NM_001394365.1NP_001381294.1  single-stranded DNA-binding protein 3 isoform i

    Status: VALIDATED

    Source sequence(s)
    AL035415, AL161644
    Related
    ENST00000326956.12
    Conserved Domains (1) summary
    pfam04503
    Location:12228
    SSDP; Single-stranded DNA binding protein, SSDP
  8. NM_001394366.1NP_001381295.1  single-stranded DNA-binding protein 3 isoform i

    Status: VALIDATED

    Source sequence(s)
    AL035415, AL161644
    Conserved Domains (1) summary
    pfam04503
    Location:12228
    SSDP; Single-stranded DNA binding protein, SSDP
  9. NM_001394367.1NP_001381296.1  single-stranded DNA-binding protein 3 isoform j

    Status: VALIDATED

    Source sequence(s)
    AL035415, AL161644
    Conserved Domains (1) summary
    TIGR01628
    Location:14154
    PABP-1234; polyadenylate binding protein, human types 1, 2, 3, 4 family
  10. NM_018070.5NP_060540.2  single-stranded DNA-binding protein 3 isoform b

    See identical proteins and their annotated locations for NP_060540.2

    Status: VALIDATED

    Description
    Transcript Variant: This variant (2) lacks an alternate in-frame exon, compared to variant 1. The encoded isoform (b) is shorter than isoform a.
    Source sequence(s)
    AF500116, AL035415, AL161644, BC066365, BF060746, DN602300
    Consensus CDS
    CCDS590.1
    UniProtKB/Swiss-Prot
    Q9BWW4
    Related
    ENSP00000350067.4, ENST00000357475.9
    Conserved Domains (2) summary
    smart00667
    Location:1743
    LisH; Lissencephaly type-1-like homology motif
    pfam04503
    Location:81345
    SSDP; Single-stranded DNA binding protein, SSDP
  11. NM_145716.4NP_663768.1  single-stranded DNA-binding protein 3 isoform a

    See identical proteins and their annotated locations for NP_663768.1

    Status: VALIDATED

    Description
    Transcript Variant: This variant (1) represents the longest transcript and encodes the longest isoform (a).
    Source sequence(s)
    AF500116, AL035415, AL161644, BC066365, BF060746, DN602300
    Consensus CDS
    CCDS591.1
    UniProtKB/Swiss-Prot
    Q9BWW3, Q9BWW4
    Related
    ENSP00000479674.2, ENST00000610401.5
    Conserved Domains (2) summary
    smart00667
    Location:1743
    LisH; Lissencephaly type-1-like homology motif
    pfam04503
    Location:81365
    SSDP; Single-stranded DNA binding protein, SSDP

RefSeqs of Annotated Genomes: Homo sapiens Annotation Release 110 details...Open this link in a new tab

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

Reference GRCh38.p14 Primary Assembly

Genomic

  1. NC_000001.11 Reference GRCh38.p14 Primary Assembly

    Range
    54225432..54413490 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_047416697.1XP_047272653.1  single-stranded DNA-binding protein 3 isoform X2

  2. XM_017000897.3XP_016856386.1  single-stranded DNA-binding protein 3 isoform X1

    UniProtKB/TrEMBL
    Q9NW25
    Related
    ENSP00000414361.2, ENST00000417664.7
    Conserved Domains (1) summary
    pfam04503
    Location:1255
    SSDP; Single-stranded DNA binding protein, SSDP
  3. XM_047416695.1XP_047272651.1  single-stranded DNA-binding protein 3 isoform X3

  4. XM_047416693.1XP_047272649.1  single-stranded DNA-binding protein 3 isoform X2

  5. XM_047416692.1XP_047272648.1  single-stranded DNA-binding protein 3 isoform X1

    UniProtKB/TrEMBL
    Q9NW25
  6. XM_017000898.3XP_016856387.1  single-stranded DNA-binding protein 3 isoform X1

    UniProtKB/TrEMBL
    Q9NW25
    Conserved Domains (1) summary
    pfam04503
    Location:1255
    SSDP; Single-stranded DNA binding protein, SSDP

Alternate T2T-CHM13v2.0

Genomic

  1. NC_060925.1 Alternate T2T-CHM13v2.0

    Range
    54108317..54296354 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)