SFTPD (surfactant protein D) - Rat Genome Database

Send us a Message



Rat Genome Database
Submit Data |  Help |  Video Tutorials |  News |  Publications |  Download |  REST API |  Citing RGD |  Contact   
Grant Resources Citing RGD About Us Contact Us
Search by Genomic Position Genes Variants Community Projects QTLs Strains Markers Genome Information Ontologies Cell Lines References Download Submit Data
OntoMate (Literature Search) JBrowse (Genome Browser) Synteny Browser (VCMap) Variant Visualizer Multi-Ontology Enrichment (MOET) Gene-Ortholog Location Finder (GOLF) InterViewer (Protein-Protein Interactions) PhenoMiner (Quantitative Phenotypes) Gene Annotator OLGA (Gene List Generator) AllianceMine GViewer (Genome Viewer)
Aging & Age-Related Disease Behavioral & Substance Use Disorder Cancer & Neoplastic Disease Cardiovascular Disease Coronavirus Disease Developmental Disease Diabetes Hematologic Disease Immune & Inflammatory Disease Infectious Disease Liver Disease Neurological Disease Obesity & Metabolic Syndrome Renal Disease Respiratory Disease Sensory Organ Disease
Find Models Genetic Models Autism Models Rat PhenoMiner (Quantitative Phenotypes) Chinchilla PhenoMiner Expected Ranges (Quantitative Phenotype) PhenoMiner Term Comparison Hybrid Rat Diversity Panel Phenotypes Phenotypes in Other Animal Models Animal Husbandry Strain Medical Records Phylogenetics Strain Availability Calendar Rats 101 Submissions Photo Archive
Pathways
Rat Community Forum Directory of Rat Laboratories Video Tutorials News RGD Publications RGD Presentations Archive Nomenclature Guidelines Resource Links Laboratory Resources Employment Resources
Advanced Search (OLGA)
Gene: SFTPD (surfactant protein D) Pan paniscus
Analyze
Symbol: SFTPD
Name: surfactant protein D
RGD ID: 11962152
Description: ENCODES a protein that exhibits galactomannan binding (ortholog); identical protein binding (ortholog); lipopolysaccharide binding (ortholog); INVOLVED IN defense response to virus (ortholog); innate immune response in mucosa (ortholog); negative regulation of interleukin-2 production (ortholog); PARTICIPATES IN forkhead class A signaling pathway; surfactant homeostasis pathway; ASSOCIATED WITH Acute Lung Injury (ortholog); adult respiratory distress syndrome (ortholog); asthma (ortholog); FOUND IN extracellular region (ortholog); multivesicular body (ortholog)
Type: protein-coding
RefSeq Status: MODEL
Previously known as: pulmonary surfactant-associated protein D
RGD Orthologs
Human
Mouse
Rat
Chinchilla
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Black Rat
Alliance Orthologs
More Info more info ...
Latest Assembly: Mhudiblu_PPA_v0 - Bonobo Mhudiblu_PPA_v0 Assembly
Position:
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v2891,904,806 - 91,950,749 (+)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan11091,910,131 - 91,957,119 (+)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v01076,275,147 - 76,318,952 (+)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.11078,965,252 - 78,974,181 (+)NCBIPanPan1.1PanPan1.1panPan2
PanPan1.1 Ensembl1078,965,252 - 78,974,181 (+)EnsemblPanPan1.1 EnsemblpanPan2panpan1.1
JBrowse:




Gene Ontology Annotations     Click to see Annotation Detail View

Cellular Component

Molecular Function

Molecular Pathway Annotations     Click to see Annotation Detail View
References
Additional References at PubMed
PMID:30032202  


Genomics

Comparative Map Data
SFTPD
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v2891,904,806 - 91,950,749 (+)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan11091,910,131 - 91,957,119 (+)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v01076,275,147 - 76,318,952 (+)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.11078,965,252 - 78,974,181 (+)NCBIPanPan1.1PanPan1.1panPan2
PanPan1.1 Ensembl1078,965,252 - 78,974,181 (+)EnsemblPanPan1.1 EnsemblpanPan2panpan1.1
SFTPD
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh381079,937,740 - 79,982,383 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl1079,936,423 - 79,983,996 (-)EnsemblGRCh38.p14 Ensemblhg38GRCh38
GRCh371081,697,496 - 81,708,861 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 361081,687,476 - 81,698,841 (-)NCBIBuild 36Build 36hg18NCBI36
Build 341081,687,486 - 81,698,836NCBI
Celera1075,688,432 - 75,699,799 (-)NCBICelera
Cytogenetic Map10q22.3NCBI
HuRef1075,540,246 - 75,551,613 (-)NCBIHuRef
CHM1_11081,980,534 - 81,991,901 (-)NCBICHM1_1
T2T-CHM13v2.01080,806,973 - 80,851,624 (-)NCBIT2T-CHM13v2.0
Sftpd
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391440,894,169 - 40,907,155 (-)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl1440,894,170 - 40,907,128 (-)EnsemblGRCm39 EnsemblGRCm39
GRCm381441,172,212 - 41,185,198 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1441,172,214 - 41,185,149 (-)EnsemblGRCm38.p6 Ensemblmm10GRCm38
MGSCv371441,985,501 - 41,998,487 (-)NCBIMGSCv37MGSCv37mm9NCBIm37
MGSCv361440,080,927 - 40,093,876 (-)NCBIMGSCv36mm8
Celera1437,332,219 - 37,345,205 (-)NCBICelera
Cytogenetic Map14BNCBI
cM Map1422.36NCBI
Sftpd
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr81617,080,575 - 17,093,047 (-)NCBIGRCr8GRCr8GRCr8
GRCr8 Ensembl1617,080,567 - 17,094,036 (-)EnsemblGRCr8
mRatBN7.21617,046,491 - 17,058,968 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1617,046,483 - 17,059,927 (-)EnsemblmRatBN7.2
UTH_Rnor_SHR_Utx1617,110,520 - 17,122,892 (-)NCBIUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.01618,238,920 - 18,251,351 (-)NCBIUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.01617,163,418 - 17,175,790 (-)NCBIUTH_Rnor_WKY_Bbb_1.0
Dahl_SR_JrHsd1617,235,809 - 17,248,232 (-)NCBI
Lyon_Normotensive1617,108,762 - 17,121,185 (-)NCBI
Lyon_Hypertensive1617,102,717 - 17,115,140 (-)NCBI
F344_StmMcwi1617,248,013 - 17,260,436 (-)NCBI
Rnor_6.01618,753,535 - 18,766,100 (-)NCBIRnor_6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1618,745,458 - 18,766,174 (-)EnsemblRnor_6.0 Ensemblrn6Rnor6.0
Rnor_5.01618,621,441 - 18,633,581 (-)NCBIRnor_5.0Rnor_5.0rn5
Celera1617,272,045 - 17,284,082 (-)NCBICelera
RH 3.4 Map16167.0RGD
Cytogenetic Map16p14NCBI
Sftpd
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_004955510213,438 - 225,896 (+)EnsemblChiLan1.0 Ensembl
ChiLan1.0NW_004955510213,468 - 226,096 (+)NCBIChiLan1.0ChiLan1.0
SFTPD
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1429,394,755 - 29,407,499 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl429,394,678 - 29,407,293 (+)EnsemblCanFam3.1 EnsemblcanFam3CanFam3.1
Dog10K_Boxer_Tasha429,519,118 - 29,533,724 (+)NCBIDog10K_Boxer_TashaDog10K_Boxer_Tasha
ROS_Cfam_1.0429,696,757 - 29,711,366 (+)NCBIROS_Cfam_1.0ROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl429,696,745 - 29,709,347 (+)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.1429,566,382 - 29,580,989 (+)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.0429,769,003 - 29,783,612 (+)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0430,123,008 - 30,137,617 (+)NCBIUU_Cfam_GSD_1.0UU_Cfam_GSD_1.0
Sftpd
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mIctTri1.hap1142,624,946 - 42,634,830 (-)NCBImIctTri1.hap1
HiC_Itri_2NW_02440721351,337,526 - 51,349,920 (-)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_00493671660,656 - 73,099 (+)EnsemblSpeTri2.0 Ensembl
SpeTri2.0NW_00493671660,754 - 73,010 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
SFTPD
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl1482,051,451 - 82,067,976 (+)EnsemblSscrofa11.1 EnsemblsusScr11Sscrofa11.1
Sscrofa11.11482,051,400 - 82,069,258 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.21488,660,094 - 88,675,023 (+)NCBISscrofa10.2Sscrofa10.2susScr3
SFTPD
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mChlSab1.0.hap1960,885,270 - 60,896,676 (+)NCBImChlSab1.0.hap1
Vero_WHO_p1.0NW_02366604812,161,420 - 12,172,864 (+)NCBIVero_WHO_p1.0Vero_WHO_p1.0
ChlSab1.1951,809,241 - 51,820,974 (+)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl951,811,052 - 51,820,650 (+)EnsemblChlSab1.1 EnsemblchlSab2Vervet-AGM
Sftpd
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla 1.0NW_0046248416,917,067 - 6,938,594 (-)NCBIHetGla 1.0HetGla 1.0hetGla2
HetGla_female_1.0 EnsemblNW_0046248416,916,849 - 6,936,077 (-)EnsemblHetGla_female_1.0 EnsemblhetGla2HetGla_female_1.0 Ensembl
Sftpd
(Rattus rattus - black rat)
Black Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Rrattus_CSIRO_v11319,689,837 - 19,703,507 (-)NCBIRrattus_CSIRO_v1Rrattus_CSIRO_v1


Expression

RNA-SEQ Expression


Sequence


Ensembl Acc Id: ENSPPAT00000057549   ⟹   ENSPPAP00000034666
Type: CODING
Position:
Bonobo AssemblyChrPosition (strand)Source
PanPan1.1 Ensembl1078,965,252 - 78,974,181 (+)Ensembl
Ensembl Acc Id: ENSPPAT00000057552   ⟹   ENSPPAP00000034669
Type: CODING
Position:
Bonobo AssemblyChrPosition (strand)Source
PanPan1.1 Ensembl1078,968,653 - 78,974,069 (+)Ensembl
RefSeq Acc Id: XM_034930969   ⟹   XP_034786860
Type: CODING
Position:
Bonobo AssemblyChrPosition (strand)Source
NHGRI_mPanPan1-v2891,904,806 - 91,950,749 (+)NCBI
NHGRI_mPanPan11091,910,131 - 91,957,119 (+)NCBI
Mhudiblu_PPA_v01076,276,261 - 76,318,952 (+)NCBI
RefSeq Acc Id: XM_055093055   ⟹   XP_054949030
Type: CODING
Position:
Bonobo AssemblyChrPosition (strand)Source
NHGRI_mPanPan1-v2891,904,806 - 91,950,749 (+)NCBI
NHGRI_mPanPan11091,910,131 - 91,957,119 (+)NCBI
RefSeq Acc Id: XM_055093056   ⟹   XP_054949031
Type: CODING
Position:
Bonobo AssemblyChrPosition (strand)Source
NHGRI_mPanPan1-v2891,904,806 - 91,950,749 (+)NCBI
NHGRI_mPanPan11091,910,131 - 91,957,119 (+)NCBI
RefSeq Acc Id: XM_055093057   ⟹   XP_054949032
Type: CODING
Position:
Bonobo AssemblyChrPosition (strand)Source
NHGRI_mPanPan1-v2891,939,719 - 91,950,749 (+)NCBI
NHGRI_mPanPan11091,945,045 - 91,957,119 (+)NCBI
Protein Sequences
Protein RefSeqs XP_034786860 (Get FASTA)   NCBI Sequence Viewer  
  XP_054949030 (Get FASTA)   NCBI Sequence Viewer  
  XP_054949031 (Get FASTA)   NCBI Sequence Viewer  
  XP_054949032 (Get FASTA)   NCBI Sequence Viewer  
Ensembl Protein ENSPPAP00000034666.1
  ENSPPAP00000034669.1
  ENSPPAP00050012044
RefSeq Acc Id: XP_034786860   ⟸   XM_034930969
- Peptide Label: isoform X1
- UniProtKB: A0A2R9BYW6 (UniProtKB/TrEMBL)
Ensembl Acc Id: ENSPPAP00000034669   ⟸   ENSPPAT00000057552
Ensembl Acc Id: ENSPPAP00000034666   ⟸   ENSPPAT00000057549
RefSeq Acc Id: XP_054949030   ⟸   XM_055093055
- Peptide Label: isoform X2
RefSeq Acc Id: XP_054949031   ⟸   XM_055093056
- Peptide Label: isoform X3
RefSeq Acc Id: XP_054949032   ⟸   XM_055093057
- Peptide Label: isoform X4
- UniProtKB: A0A2R9C8B9 (UniProtKB/TrEMBL)
Protein Domains
C-type lectin


Additional Information

Database Acc Id Source(s)
Ensembl Genes ENSPPAG00000040170 Ensembl, UniProtKB/TrEMBL
  ENSPPAG00050009045 ENTREZGENE
Ensembl Transcript ENSPPAT00000057549.1 UniProtKB/TrEMBL
  ENSPPAT00000057552.1 UniProtKB/TrEMBL
  ENSPPAT00050019328 ENTREZGENE
Gene3D-CATH 3.10.100.10 UniProtKB/TrEMBL
  SFTPD helical domain UniProtKB/TrEMBL
InterPro C-type_lectin-like UniProtKB/TrEMBL
  C-type_lectin-like/link_sf UniProtKB/TrEMBL
  C-type_lectin_CS UniProtKB/TrEMBL
  Ca-dependent_lectin UniProtKB/TrEMBL
  Collagen UniProtKB/TrEMBL
  Collectin_CTLD UniProtKB/TrEMBL
  CTDL_fold UniProtKB/TrEMBL
  Surfac_D-trimer UniProtKB/TrEMBL
KEGG Report pps:100975077 UniProtKB/TrEMBL
NCBI Gene SFTPD ENTREZGENE
PANTHER PULMONARY SURFACTANT-ASSOCIATED PROTEIN A UniProtKB/TrEMBL
  PULMONARY SURFACTANT-ASSOCIATED PROTEIN D UniProtKB/TrEMBL
Pfam Collagen UniProtKB/TrEMBL
  Lectin_C UniProtKB/TrEMBL
  Surfac_D-trimer UniProtKB/TrEMBL
PROSITE C_TYPE_LECTIN_1 UniProtKB/TrEMBL
  C_TYPE_LECTIN_2 UniProtKB/TrEMBL
SMART CLECT UniProtKB/TrEMBL
Superfamily-SCOP SSF56436 UniProtKB/TrEMBL
  Triple coiled coil domain of C-type lectins UniProtKB/TrEMBL
UniProt A0A2R9BYW6 ENTREZGENE, UniProtKB/TrEMBL
  A0A2R9C8B9 ENTREZGENE, UniProtKB/TrEMBL