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SSBP4 single stranded DNA binding protein 4 [ Homo sapiens (human) ]

Gene ID: 170463, updated on 5-Aug-2022

Summary

Official Symbol
SSBP4provided by HGNC
Official Full Name
single stranded DNA binding protein 4provided by HGNC
Primary source
HGNC:HGNC:15676
See related
Ensembl:ENSG00000130511 MIM:607391; AllianceGenome:HGNC:15676
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
Summary
Predicted to enable single-stranded DNA binding activity. Predicted to be involved in positive regulation of transcription by RNA polymerase II. Predicted to be integral component of membrane. Predicted to be active in nucleus. [provided by Alliance of Genome Resources, Apr 2022]
Expression
Ubiquitous expression in spleen (RPKM 6.5), fat (RPKM 4.8) and 25 other tissues See more
Orthologs
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Genomic context

See SSBP4 in Genome Data Viewer
Location:
19p13.11
Exon count:
24
Annotation release Status Assembly Chr Location
110 current GRCh38.p14 (GCF_000001405.40) 19 NC_000019.10 (18402725..18434562)
110 current T2T-CHM13v2.0 (GCF_009914755.1) 19 NC_060943.1 (18553575..18568741)
105.20220307 previous assembly GRCh37.p13 (GCF_000001405.25) 19 NC_000019.9 (18530208..18545372)

Chromosome 19 - NC_000019.10Genomic Context describing neighboring genes Neighboring gene microRNA 3189 Neighboring gene growth differentiation factor 15 Neighboring gene leucine rich repeat containing 25 Neighboring gene CRISPRi-validated cis-regulatory element chr19.2899 Neighboring gene inositol-3-phosphate synthase 1 Neighboring gene elongation factor for RNA polymerase II Neighboring gene Sharpr-MPRA regulatory region 11651 Neighboring gene FKBP prolyl isomerase 8

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

Interactions

Products Interactant Other Gene Complex Source Pubs Description

General gene information

Markers

Homology

Clone Names

  • MGC3181

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
 
Process Evidence Code Pubs
involved_in positive regulation of transcription by RNA polymerase II IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
Component Evidence Code Pubs
is_active_in nucleus IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 

General protein information

Preferred Names
single-stranded DNA-binding protein 4

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_001009998.4NP_001009998.1  single-stranded DNA-binding protein 4 isoform b

    See identical proteins and their annotated locations for NP_001009998.1

    Status: VALIDATED

    Description
    Transcript Variant: This variant (2) lacks an in-frame exon in the coding region, compared to variant 1. The encoded isoform (b) is shorter than isoform 1.
    Source sequence(s)
    BC000274, BU838485, CX873722
    Consensus CDS
    CCDS32960.1
    UniProtKB/Swiss-Prot
    Q9BWG4
    Related
    ENSP00000252807.7, ENST00000348495.10
    Conserved Domains (3) summary
    smart00667
    Location:1844
    LisH; Lissencephaly type-1-like homology motif
    pfam04503
    Location:82338
    SSDP; Single-stranded DNA binding protein, SSDP
    pfam04959
    Location:109195
    ARS2; Arsenite-resistance protein 2
  2. NM_032627.5NP_116016.1  single-stranded DNA-binding protein 4 isoform a

    See identical proteins and their annotated locations for NP_116016.1

    Status: VALIDATED

    Description
    Transcript Variant: This variant (1) represents the longer transcript and encodes the longer isoform (a).
    Source sequence(s)
    BC000274, CX873722
    Consensus CDS
    CCDS12378.1
    UniProtKB/Swiss-Prot
    Q9BWG4, Q9BWW5
    Related
    ENSP00000270061.5, ENST00000270061.12
    Conserved Domains (2) summary
    smart00667
    Location:1844
    LisH; Lissencephaly type-1-like homology motif
    pfam04503
    Location:82360
    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_000019.10 Reference GRCh38.p14 Primary Assembly

    Range
    18402725..18434562
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_047438370.1XP_047294326.1  single-stranded DNA-binding protein 4 isoform X11

  2. XM_047438368.1XP_047294324.1  single-stranded DNA-binding protein 4 isoform X6

  3. XM_047438374.1XP_047294330.1  single-stranded DNA-binding protein 4 isoform X14

  4. XM_006722665.5XP_006722728.1  single-stranded DNA-binding protein 4 isoform X1

    Conserved Domains (1) summary
    pfam04503
    Location:104382
    SSDP; Single-stranded DNA binding protein, SSDP
  5. XM_005259790.4XP_005259847.1  single-stranded DNA-binding protein 4 isoform X9

    Conserved Domains (1) summary
    pfam04503
    Location:104382
    SSDP; Single-stranded DNA binding protein, SSDP
  6. XM_047438367.1XP_047294323.1  single-stranded DNA-binding protein 4 isoform X5

  7. XM_017026437.2XP_016881926.1  single-stranded DNA-binding protein 4 isoform X10

  8. XM_006722666.3XP_006722729.1  single-stranded DNA-binding protein 4 isoform X4

    Conserved Domains (2) summary
    smart00667
    Location:1844
    LisH; Lissencephaly type-1-like homology motif
    pfam04503
    Location:82360
    SSDP; Single-stranded DNA binding protein, SSDP
  9. XM_047438366.1XP_047294322.1  single-stranded DNA-binding protein 4 isoform X3

  10. XM_047438377.1XP_047294333.1  single-stranded DNA-binding protein 4 isoform X17

  11. XM_006722668.3XP_006722731.1  single-stranded DNA-binding protein 4 isoform X8

    Conserved Domains (3) summary
    smart00667
    Location:1844
    LisH; Lissencephaly type-1-like homology motif
    pfam04503
    Location:82338
    SSDP; Single-stranded DNA binding protein, SSDP
    pfam04959
    Location:109195
    ARS2; Arsenite-resistance protein 2
  12. XM_047438371.1XP_047294327.1  single-stranded DNA-binding protein 4 isoform X12

  13. XM_047438372.1XP_047294328.1  single-stranded DNA-binding protein 4 isoform X13

  14. XM_047438375.1XP_047294331.1  single-stranded DNA-binding protein 4 isoform X15

  15. XM_047438376.1XP_047294332.1  single-stranded DNA-binding protein 4 isoform X16

  16. XM_047438373.1XP_047294329.1  single-stranded DNA-binding protein 4 isoform X14

  17. XM_047438365.1XP_047294321.1  single-stranded DNA-binding protein 4 isoform X2

  18. XM_047438369.1XP_047294325.1  single-stranded DNA-binding protein 4 isoform X7

RNA

  1. XR_936164.4 RNA Sequence

Alternate T2T-CHM13v2.0

Genomic

  1. NC_060943.1 Alternate T2T-CHM13v2.0

    Range
    18553575..18568741
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)