Snx18 (sorting nexin 18) - Rat Genome Database

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Gene: Snx18 (sorting nexin 18) Mus musculus
Analyze
Symbol: Snx18
Name: sorting nexin 18
RGD ID: 1321232
MGI Page MGI
Description: Enables phosphatidylinositol binding activity. Predicted to be involved in several processes, including cytoskeleton-dependent cytokinesis; plasma membrane tubulation; and positive regulation of autophagosome assembly. Located in growth cone and neuronal cell body. Is expressed in several structures, including alimentary system; central nervous system; genitourinary system; hemolymphoid system; and integumental system. Orthologous to human SNX18 (sorting nexin 18).
Type: protein-coding
RefSeq Status: VALIDATED
Previously known as: Sn; Snag1; sorting nexin associated golgi protein 1; sorting nexin-18; sorting nexin-associated Golgi protein 1
RGD Orthologs
Human
Rat
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Orthologs
More Info more info ...
Latest Assembly: GRCm39 - Mouse Genome Assembly GRCm39
Position:
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm3913113,728,715 - 113,755,100 (-)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl13113,728,715 - 113,755,100 (-)EnsemblGRCm39 Ensembl
GRCm3813113,592,179 - 113,618,564 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl13113,592,179 - 113,618,564 (-)EnsemblGRCm38mm10GRCm38
MGSCv3713114,382,387 - 114,408,772 (-)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv3613114,713,061 - 114,739,419 (-)NCBIMGSCv36mm8
Celera13117,901,784 - 117,928,168 (-)NCBICelera
Cytogenetic Map13D2.2NCBI
cM Map1364.0NCBI
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

Molecular Function

Phenotype Annotations     Click to see Annotation Detail View

Mammalian Phenotype
References

References - curated
# Reference Title Reference Citation
1. MGDs mouse GO annotations MGD data from the GO Consortium
2. Analysis of the mouse transcriptome based on functional annotation of 60,770 full-length cDNAs. Okazaki Y, etal., Nature. 2002 Dec 5;420(6915):563-73.
3. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
Additional References at PubMed
PMID:8889548   PMID:10349636   PMID:11042159   PMID:11076861   PMID:11217851   PMID:12477932   PMID:12904583   PMID:14610273   PMID:15747579   PMID:15782199   PMID:16141072   PMID:16141073  
PMID:17761170   PMID:17967808   PMID:18799693   PMID:21267068   PMID:21339182   PMID:21873635   PMID:24194600   PMID:24457600   PMID:27480124   PMID:32098917   PMID:37072933   PMID:38355793  


Genomics

Comparative Map Data
Snx18
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm3913113,728,715 - 113,755,100 (-)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl13113,728,715 - 113,755,100 (-)EnsemblGRCm39 Ensembl
GRCm3813113,592,179 - 113,618,564 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl13113,592,179 - 113,618,564 (-)EnsemblGRCm38mm10GRCm38
MGSCv3713114,382,387 - 114,408,772 (-)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv3613114,713,061 - 114,739,419 (-)NCBIMGSCv36mm8
Celera13117,901,784 - 117,928,168 (-)NCBICelera
Cytogenetic Map13D2.2NCBI
cM Map1364.0NCBI
SNX18
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38554,517,759 - 54,648,005 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl554,517,759 - 54,546,586 (+)EnsemblGRCh38hg38GRCh38
GRCh37553,813,589 - 53,842,416 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 36553,849,350 - 53,878,173 (+)NCBINCBI36Build 36hg18NCBI36
Build 34553,849,539 - 53,851,426NCBI
Celera550,767,064 - 50,795,890 (+)NCBICelera
Cytogenetic Map5q11.2NCBI
HuRef550,787,437 - 50,816,259 (+)NCBIHuRef
CHM1_1553,816,580 - 53,845,409 (+)NCBICHM1_1
T2T-CHM13v2.0555,345,475 - 55,475,784 (+)NCBIT2T-CHM13v2.0
Snx18
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr8246,965,498 - 46,991,516 (-)NCBIGRCr8
mRatBN7.2245,232,325 - 45,258,345 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl245,232,325 - 45,258,345 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx252,343,993 - 52,369,979 (-)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0250,402,361 - 50,428,348 (-)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0245,274,943 - 45,301,291 (-)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.0245,454,782 - 45,480,798 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl245,454,782 - 45,480,798 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.0264,486,855 - 64,512,619 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4245,014,383 - 45,040,586 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.1244,943,876 - 45,006,230 (-)NCBI
Celera241,000,711 - 41,026,746 (-)NCBICelera
Cytogenetic Map2q14NCBI
Snx18
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_00495544613,043,821 - 13,067,933 (-)EnsemblChiLan1.0
ChiLan1.0NW_00495544613,043,821 - 13,067,933 (-)NCBIChiLan1.0ChiLan1.0
SNX18
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v2459,181,347 - 59,419,695 (-)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan1557,334,972 - 57,573,292 (-)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v0559,270,053 - 59,508,359 (-)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.1561,101,061 - 61,129,397 (-)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl561,101,056 - 61,129,397 (-)Ensemblpanpan1.1panPan2
SNX18
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1460,803,245 - 60,945,317 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl460,835,783 - 60,945,828 (-)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha460,569,927 - 60,710,959 (-)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.0461,295,275 - 61,436,640 (-)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl461,302,014 - 61,436,904 (-)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.1461,185,900 - 61,215,498 (-)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.0461,201,579 - 61,342,650 (-)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0461,720,198 - 61,861,418 (-)NCBIUU_Cfam_GSD_1.0
Snx18
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_024407213204,025,143 - 204,201,070 (-)NCBIHiC_Itri_2
SpeTri2.0NW_00493648013,108,510 - 13,137,550 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
SNX18
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl1633,776,746 - 33,847,624 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.11633,776,964 - 33,801,391 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.21635,846,933 - 35,859,015 (-)NCBISscrofa10.2Sscrofa10.2susScr3
SNX18
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1450,782,842 - 50,810,220 (+)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl450,782,929 - 50,811,253 (+)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_023666082261,616 - 288,960 (-)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Snx18
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_0046247594,850,555 - 4,879,478 (-)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_0046247594,851,014 - 4,879,365 (-)NCBIHetGla_female_1.0HetGla 1.0hetGla2

Variants

.
Variants in Snx18
1095 total Variants
miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:817
Count of miRNA genes:446
Interacting mature miRNAs:555
Transcripts:ENSMUST00000109241
Prediction methods:Miranda, Rnahybrid, Targetscan
Result types:miRGate_prediction

The detailed report is available here: Full Report CSV TAB Printer

miRNA Target Status data imported from miRGate (http://mirgate.bioinfo.cnio.es/).
For more information about miRGate, see PMID:25858286 or access the full paper here.


QTLs in Region (GRCm39)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
4142334Svtms_msurvival time modifier of Sod2 (mouse)Not determined13107613580119476372Mouse
1558741Ses10_msalmonella enteritidis susceptibility 10 (mouse)Not determined1382739968116740106Mouse
1301142Heal2_mwound healing/regeneration 2 (mouse)Not determined1393875267120883175Mouse
1357468Rplag_mreduced platelet aggregation (mouse)Not determined1395502130120883175Mouse
12879496Fexq2_mfear expression QTL 2 (mouse)13100741519120883175Mouse
14700691Cisaq1_mcoxsackieviral infection serum ALT QTL 1 (mouse)1386148119120461536Mouse
4141704Hipq1_mhyperinsulin production QTL 1 (mouse)Not determined110409487119476372Mouse
1300939Hrtfm6_mheart failure modifier 6 (mouse)Not determined1391383692120883175Mouse
1558763Gct9_mgranulosa cell tumorigenesis 9 (mouse)Not determined1395036824120883175Mouse
4140995Fbtq6_mfemoral bone trait QTL 6 (mouse)Not determined1386341617120341758Mouse
4142338Skmw18_mskeletal muscle weight 18 (mouse)Not determined1394528399120883175Mouse
4141826Tbqt5_mtibia bone quality traits 5 (mouse)Not determined13103341617117043216Mouse
4142465Pbwg17_mpostnatal body weight growth 17 (mouse)Not determined1383876060117876256Mouse
1300876Tanidd2_mtally ho associated non-insulin dependednt diabetes mellitus 2 (mouse)Not determined1391965303120883175Mouse
4142400Tgq24_mtriglyceride QTL 24 (mouse)Not determined102602630120883175Mouse
14746974Manh75_mmandible shape 75 (mouse)1399386647120883175Mouse


Expression

RNA-SEQ Expression


Sequence


Ensembl Acc Id: ENSMUST00000109241   ⟹   ENSMUSP00000104864
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39 Ensembl13113,728,715 - 113,755,100 (-)Ensembl
GRCm38.p6 Ensembl13113,592,179 - 113,618,564 (-)Ensembl
Ensembl Acc Id: ENSMUST00000223993
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39 Ensembl13113,728,721 - 113,750,177 (-)Ensembl
GRCm38.p6 Ensembl13113,592,185 - 113,613,641 (-)Ensembl
Ensembl Acc Id: ENSMUST00000224883
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39 Ensembl13113,731,288 - 113,750,550 (-)Ensembl
GRCm38.p6 Ensembl13113,594,752 - 113,614,014 (-)Ensembl
RefSeq Acc Id: NM_130796   ⟹   NP_570614
RefSeq Status: VALIDATED
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm3913113,728,715 - 113,755,100 (-)NCBI
GRCm3813113,592,179 - 113,618,564 (-)ENTREZGENE
MGSCv3713114,382,387 - 114,408,772 (-)RGD
Celera13117,901,784 - 117,928,168 (-)RGD
cM Map13 ENTREZGENE
Sequence:
RefSeq Acc Id: NP_570614   ⟸   NM_130796
- UniProtKB: Q91ZR2 (UniProtKB/Swiss-Prot),   Q8C788 (UniProtKB/TrEMBL)
- Sequence:
Ensembl Acc Id: ENSMUSP00000104864   ⟸   ENSMUST00000109241
Protein Domains
BAR   PX   SH3

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-Q91ZR2-F1-model_v2 AlphaFold Q91ZR2 1-614 view protein structure

Promoters
RGD ID:8681340
Promoter ID:EPDNEW_M18701
Type:initiation region
Name:Snx18_1
Description:Mus musculus sorting nexin 18 , mRNA.
SO ACC ID:SO:0000170
Source:EPDNEW (Eukaryotic Promoter Database, http://epd.vital-it.ch/)
Experiment Methods:Single-end sequencing.
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm3813113,618,556 - 113,618,616EPDNEW
RGD ID:6824432
Promoter ID:MM_KWN:15308
Type:CpG-Island
SO ACC ID:SO:0000170
Source:MPROMDB
Tissues & Cell Lines:3T3L1_Day0,   3T3L1_Day1,   3T3L1_Day2,   3T3L1_Day3,   3T3L1_Day4,   3T3L1_Day6,   BoneMarrow_0Hour,   BoneMarrow_2Hour,   BoneMarrow_4Hour,   Brain,   ES_Cell,   Kidney,   Liver,   Lung,   MEF_B4,   MEF_B6,   Spleen
Transcripts:UC007RXH.1
Position:
Mouse AssemblyChrPosition (strand)Source
MGSCv3613114,405,356 - 114,408,802 (-)MPROMDB

Additional Information

Database Acc Id Source(s)
AGR Gene MGI:2137642 AgrOrtholog
Ensembl Genes ENSMUSG00000042364 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSMUST00000109241 ENTREZGENE
  ENSMUST00000109241.5 UniProtKB/TrEMBL
Gene3D-CATH 1.20.1270.60 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  3.30.1520.10 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  SH3 Domains UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
InterPro AH/BAR_dom_sf UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Phox UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  PX_dom_sf UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  SH3-like_dom_sf UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  SH3_domain UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  SNX18_PX UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  SNX18_SH3 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Snx9_fam UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Sorting_nexin_WASP-bd-dom UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
KEGG Report mmu:170625 UniProtKB/TrEMBL
MGD MGI:2137642 ENTREZGENE
NCBI Gene 170625 ENTREZGENE
PANTHER PTHR45827:SF4 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  SORTING NEXIN UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Pfam BAR_3_WASP_bdg UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  PF00787 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  SH3_9 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PhenoGen Snx18 PhenoGen
PIRSF Snx9 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PROSITE PS50195 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  SH3 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
SMART SH3 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  SM00312 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Superfamily-SCOP SSF50044 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  SSF64268 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
UniProt Q3U1H7_MOUSE UniProtKB/TrEMBL
  Q3UPB9_MOUSE UniProtKB/TrEMBL
  Q8C788 ENTREZGENE, UniProtKB/TrEMBL
  Q91ZR2 ENTREZGENE, UniProtKB/Swiss-Prot