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Sftpd surfactant protein D [ Rattus norvegicus (Norway rat) ]

Gene ID: 25350, updated on 26-May-2016
Official Symbol
Sftpdprovided by RGD
Official Full Name
surfactant protein Dprovided by RGD
Primary source
RGD:3667
See related
Ensembl:ENSRNOG00000056001
Gene type
protein coding
RefSeq status
PROVISIONAL
Organism
Rattus norvegicus
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Sciurognathi; Muroidea; Muridae; Murinae; Rattus
Also known as
SPD; SP-D
Summary
binds carbohydrates; may play a role in defense response in the lung [RGD, Feb 2006]
Annotation information
Annotation category: suggests misassembly
Orthologs
Location:
16p14
Exon count:
8
Annotation release Status Assembly Chr Location
105 current Rnor_6.0 (GCF_000001895.5) 16 NC_005115.4 (18753456..18766100, complement)
104 previous assembly Rnor_5.0 (GCF_000001895.4) 16 NC_005115.3 (18621441..18633581, complement)

Chromosome 16 - NC_005115.4Genomic Context describing neighboring genes Neighboring gene similar to phafin 2 Neighboring gene mannose-binding lectin (protein A) 1 Neighboring gene uncharacterized LOC102548312 Neighboring gene unconventional myosin-IXb-like

GeneRIFs: Gene References Into FunctionsWhat's a GeneRIF?

  • Phagosome, organism-specific biosystem (from KEGG)
    Phagosome, organism-specific biosystemPhagocytosis is the process of taking in relatively large particles by a cell, and is a central mechanism in the tissue remodeling, inflammation, and defense against infectious agents. A phagosome is...
  • Phagosome, conserved biosystem (from KEGG)
    Phagosome, conserved biosystemPhagocytosis is the process of taking in relatively large particles by a cell, and is a central mechanism in the tissue remodeling, inflammation, and defense against infectious agents. A phagosome is...
Products Interactant Other Gene Complex Source Pubs Description

Markers

Homology

Gene Ontology Provided by RGD

Function Evidence Code Pubs
identical protein binding IDA
Inferred from Direct Assay
more info
PubMed 
lipopolysaccharide binding IDA
Inferred from Direct Assay
more info
PubMed 
monosaccharide binding IDA
Inferred from Direct Assay
more info
PubMed 
Process Evidence Code Pubs
innate immune response IEA
Inferred from Electronic Annotation
more info
 
lung alveolus development IEA
Inferred from Electronic Annotation
more info
 
lung alveolus development ISO
Inferred from Sequence Orthology
more info
 
lung alveolus development ISS
Inferred from Sequence or Structural Similarity
more info
 
negative regulation of T cell proliferation IDA
Inferred from Direct Assay
more info
PubMed 
negative regulation of interleukin-2 production IDA
Inferred from Direct Assay
more info
PubMed 
negative regulation of phagocytosis IDA
Inferred from Direct Assay
more info
PubMed 
opsonization IDA
Inferred from Direct Assay
more info
PubMed 
positive regulation of phagocytosis IDA
Inferred from Direct Assay
more info
PubMed 
regulation of liquid surface tension IDA
Inferred from Direct Assay
more info
PubMed 
respiratory gaseous exchange IEA
Inferred from Electronic Annotation
more info
 
response to corticosteroid IEP
Inferred from Expression Pattern
more info
PubMed 
response to glucocorticoid IEP
Inferred from Expression Pattern
more info
PubMed 
response to growth factor IEP
Inferred from Expression Pattern
more info
PubMed 
response to hyperoxia IEP
Inferred from Expression Pattern
more info
PubMed 
surfactant homeostasis IEA
Inferred from Electronic Annotation
more info
 
surfactant homeostasis IMP
Inferred from Mutant Phenotype
more info
PubMed 
surfactant homeostasis ISO
Inferred from Sequence Orthology
more info
 
surfactant homeostasis ISS
Inferred from Sequence or Structural Similarity
more info
 
Component Evidence Code Pubs
collagen trimer IEA
Inferred from Electronic Annotation
more info
 
cytoplasm IEA
Inferred from Electronic Annotation
more info
 
cytoplasm ISO
Inferred from Sequence Orthology
more info
 
cytoplasmic vesicle IDA
Inferred from Direct Assay
more info
PubMed 
extracellular space IDA
Inferred from Direct Assay
more info
PubMed 
multivesicular body IDA
Inferred from Direct Assay
more info
PubMed 
proteinaceous extracellular matrix IEA
Inferred from Electronic Annotation
more info
 
rough endoplasmic reticulum IDA
Inferred from Direct Assay
more info
PubMed 
Preferred Names
pulmonary surfactant-associated protein D
Names
CP4
PSP-D
lung surfactant protein D
pulmonary surfactant protein D
surfactant associated protein D
surfactant, pulmonary-associated protein D

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_012878.2NP_037010.1  pulmonary surfactant-associated protein D precursor

    See identical proteins and their annotated locations for NP_037010.1

    Status: PROVISIONAL

    Source sequence(s)
    M81231
    UniProtKB/Swiss-Prot
    P35248
    Related
    ENSRNOP00000069079, ENSRNOT00000084813
    Conserved Domains (3) summary
    pfam09006
    Location:223268
    Surfac_D-trimer; Lung surfactant protein D coiled-coil trimerization
    pfam01391
    Location:66124
    Collagen; Collagen triple helix repeat (20 copies)
    cl02432
    Location:261374
    CLECT; C-type lectin (CTL)/C-type lectin-like (CTLD) domain

RefSeqs of Annotated Genomes: Rattus norvegicus Annotation Release 105 details...

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

Reference Rnor_6.0 Primary Assembly

Genomic

  1. NC_005115.4 Reference Rnor_6.0 Primary Assembly

    Range
    18753456..18766100 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_008771065.1XP_008769287.1  

    See identical proteins and their annotated locations for XP_008769287.1

    UniProtKB/Swiss-Prot
    P35248
    Conserved Domains (3) summary
    pfam09006
    Location:223268
    Surfac_D-trimer; Lung surfactant protein D coiled-coil trimerization
    pfam01391
    Location:66124
    Collagen; Collagen triple helix repeat (20 copies)
    cl02432
    Location:261374
    CLECT; C-type lectin (CTL)/C-type lectin-like (CTLD) domain

Alternate Rn_Celera

Genomic

  1. AC_000084.1 Alternate Rn_Celera

    Range
    17272045..17284082 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)