SNX20 (sorting nexin 20) - Rat Genome Database

Send us a Message
Submit Data |  Help |  Video Tutorials |  News |  Publications |  Download |  REST API |  Citing RGD |  Contact   
Search RGD Grant Resources Citing RGD About Us Contact Us
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 (Quatitative Phenotypes) Gene Annotator OLGA (Gene List Generator) AllianceMine GViewer (Genome Viewer)
Aging & Age-Related Disease 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   new 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
Gene: SNX20 (sorting nexin 20) Chlorocebus sabaeus
Analyze
Symbol: SNX20
Name: sorting nexin 20
RGD ID: 18399244
Description: ENCODES a protein that exhibits phosphatidylinositol-3-phosphate binding (ortholog); phosphatidylinositol-4,5-bisphosphate binding (ortholog); INVOLVED IN protein transport (inferred); ASSOCIATED WITH genetic disease (ortholog); nephronophthisis 14 (ortholog); FOUND IN early endosome membrane (inferred); endosome (inferred); membrane (inferred)
Type: protein-coding
RefSeq Status: MODEL
Previously known as: sorting nexin-20
RGD Orthologs
Human
Mouse
Rat
Chinchilla
Bonobo
Dog
Pig
Naked Mole-Rat
Alliance Genes
More Info more info ...
Latest Assembly: ChlSab1.1 - Green Monkey 1.1 Assembly
Position:
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1536,467,839 - 36,481,083 (-)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl536,469,366 - 36,480,514 (-)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_02366604740,021,561 - 40,031,658 (+)NCBIVero_WHO_p1.0Vero_WHO_p1.0
JBrowse: View Region in Genome Browser (JBrowse)
Model


Disease Annotations     Click to see Annotation Detail View

Gene Ontology Annotations     Click to see Annotation Detail View

Biological Process

Cellular Component

References
Additional References at PubMed
PMID:30032202  


Genomics

Comparative Map Data
SNX20
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1536,467,839 - 36,481,083 (-)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl536,469,366 - 36,480,514 (-)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_02366604740,021,561 - 40,031,658 (+)NCBIVero_WHO_p1.0Vero_WHO_p1.0
SNX20
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh381650,666,300 - 50,681,312 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl1650,666,300 - 50,681,353 (-)EnsemblGRCh38hg38GRCh38
GRCh371650,700,211 - 50,715,223 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 361649,264,387 - 49,272,667 (-)NCBINCBI36Build 36hg18NCBI36
Celera1635,215,527 - 35,230,577 (-)NCBICelera
Cytogenetic Map16q12.1NCBI
HuRef1636,588,004 - 36,603,054 (-)NCBIHuRef
CHM1_11652,107,729 - 52,122,779 (-)NCBICHM1_1
T2T-CHM13v2.01656,463,916 - 56,478,923 (-)NCBIT2T-CHM13v2.0
Snx20
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39889,353,189 - 89,362,769 (-)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl889,353,191 - 89,362,756 (-)EnsemblGRCm39 Ensembl
GRCm38888,626,561 - 88,636,133 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl888,626,563 - 88,636,128 (-)EnsemblGRCm38mm10GRCm38
MGSCv37891,150,727 - 91,160,027 (-)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv36891,516,933 - 91,526,233 (-)NCBIMGSCv36mm8
Celera892,907,268 - 92,916,455 (-)NCBICelera
Cytogenetic Map8C3NCBI
cM Map843.51NCBI
Snx20
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr81934,609,397 - 34,618,569 (+)NCBIGRCr8
mRatBN7.21918,435,935 - 18,445,108 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1918,435,935 - 18,445,107 (+)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx1920,115,486 - 20,124,660 (+)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.01925,310,096 - 25,319,280 (+)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.01928,267,854 - 28,277,004 (+)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.01919,395,655 - 19,404,846 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1919,395,655 - 19,404,835 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01930,428,393 - 30,436,777 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41919,715,997 - 19,726,145 (+)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.11919,720,822 - 19,730,970 (+)NCBI
Celera1918,322,643 - 18,331,589 (+)NCBICelera
Cytogenetic Map19p11NCBI
Snx20
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049554338,727,493 - 8,731,398 (-)EnsemblChiLan1.0
ChiLan1.0NW_0049554338,725,950 - 8,734,699 (-)NCBIChiLan1.0ChiLan1.0
SNX20
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v21860,124,381 - 60,138,701 (-)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan11666,030,121 - 66,044,337 (-)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v01630,928,545 - 30,944,509 (-)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.11649,814,315 - 49,822,209 (-)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl1649,809,077 - 49,818,459 (-)Ensemblpanpan1.1panPan2
SNX20
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1264,681,329 - 64,689,825 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl264,681,303 - 64,692,486 (+)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha261,254,013 - 61,262,796 (+)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.0265,226,579 - 65,235,362 (+)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl265,226,554 - 65,237,740 (+)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.1262,050,248 - 62,059,016 (+)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.0263,070,208 - 63,078,984 (+)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0263,957,752 - 63,966,522 (+)NCBIUU_Cfam_GSD_1.0
SNX20
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl634,176,748 - 34,191,570 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.1634,176,753 - 34,188,233 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Snx20
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_0046247576,014,238 - 6,019,378 (+)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_0046247576,011,750 - 6,019,378 (+)NCBIHetGla_female_1.0HetGla 1.0hetGla2


Expression


RNA-SEQ Expression
High: > 1000 TPM value   Medium: Between 11 and 1000 TPM
Low: Between 0.5 and 10 TPM   Below Cutoff: < 0.5 TPM

endocrine system hemolymphoid system nervous system
High
Medium 8
Low 36 12 51
Below cutoff 9

Sequence


Reference Sequences
RefSeq Acc Id: ENSCSAT00000003369   ⟹   ENSCSAP00000001651
Type: CODING
Position:
Green Monkey AssemblyChrPosition (strand)Source
ChlSab1.1 Ensembl536,469,366 - 36,480,514 (-)Ensembl
RefSeq Acc Id: XM_007992905   ⟹   XP_007991096
Type: CODING
Position:
Green Monkey AssemblyChrPosition (strand)Source
ChlSab1.1536,471,492 - 36,481,082 (-)NCBI
Vero_WHO_p1.0NW_02366604740,021,561 - 40,031,658 (+)NCBI
Sequence:
Protein Sequences
Protein RefSeqs XP_007991096 (Get FASTA)   NCBI Sequence Viewer  
Ensembl Protein ENSCSAP00000001651
  ENSCSAP00000001651.1
Reference Protein Sequences
RefSeq Acc Id: XP_007991096   ⟸   XM_007992905
- UniProtKB: A0A0D9QZ62 (UniProtKB/TrEMBL)
RefSeq Acc Id: ENSCSAP00000001651   ⟸   ENSCSAT00000003369


Additional Information

Database Acc Id Source(s)
Ensembl Genes ENSCSAG00000005339 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSCSAT00000003369.1 UniProtKB/TrEMBL
Gene3D-CATH 3.30.1520.10 UniProtKB/TrEMBL
InterPro Phox UniProtKB/TrEMBL
  PX_dom_sf UniProtKB/TrEMBL
  SNX20/SNX21 UniProtKB/TrEMBL
KEGG Report csab:103232707 UniProtKB/TrEMBL
NCBI Gene SNX20 ENTREZGENE
PANTHER PTHR20939 UniProtKB/TrEMBL
  SORTING NEXIN-20 UniProtKB/TrEMBL
Pfam PF00787 UniProtKB/TrEMBL
PROSITE PS50195 UniProtKB/TrEMBL
SMART SM00312 UniProtKB/TrEMBL
Superfamily-SCOP SSF64268 UniProtKB/TrEMBL
UniProt A0A0D9QZ62 ENTREZGENE, UniProtKB/TrEMBL