SNX4 (sorting nexin 4) - Rat Genome Database

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Gene: SNX4 (sorting nexin 4) Canis lupus familiaris
Analyze
Symbol: SNX4
Name: sorting nexin 4
RGD ID: 12230249
Description: ENCODES a protein that exhibits epidermal growth factor receptor binding (inferred); insulin receptor binding (inferred); leptin receptor binding (inferred); INVOLVED IN endocytic recycling (inferred); positive regulation of autophagosome assembly (inferred); positive regulation of histamine secretion by mast cell (inferred); ASSOCIATED WITH alkaptonuria (ortholog); familial hypocalciuric hypercalcemia (ortholog); Familial Thoracic Aortic Aneurysm 7 (ortholog); FOUND IN early endosome (ortholog); early endosome membrane (ortholog); presynaptic endosome (ortholog)
Type: protein-coding
RefSeq Status: MODEL
Previously known as: sorting nexin-4
RGD Orthologs
Human
Mouse
Rat
Chinchilla
Bonobo
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Genes
More Info more info ...
Latest Assembly: CanFam3.1 - Dog CanFam3.1 Assembly
Position:
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.13328,413,586 - 28,468,546 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl3328,419,128 - 28,469,488 (-)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha3328,435,320 - 28,505,544 (-)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.03328,645,502 - 28,715,994 (-)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl3328,645,503 - 28,715,999 (-)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.13328,443,347 - 28,513,160 (-)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.03328,488,217 - 28,558,536 (-)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.03329,107,848 - 29,178,056 (-)NCBIUU_Cfam_GSD_1.0
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene Ontology Annotations     Click to see Annotation Detail View

Biological Process

Cellular Component

References
Additional References at PubMed
PMID:22301074   PMID:30032202  


Genomics

Comparative Map Data
SNX4
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.13328,413,586 - 28,468,546 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl3328,419,128 - 28,469,488 (-)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha3328,435,320 - 28,505,544 (-)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.03328,645,502 - 28,715,994 (-)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl3328,645,503 - 28,715,999 (-)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.13328,443,347 - 28,513,160 (-)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.03328,488,217 - 28,558,536 (-)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.03329,107,848 - 29,178,056 (-)NCBIUU_Cfam_GSD_1.0
SNX4
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh383125,446,650 - 125,520,202 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl3125,446,650 - 125,520,202 (-)EnsemblGRCh38hg38GRCh38
GRCh373125,165,494 - 125,239,046 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 363126,648,184 - 126,721,748 (-)NCBINCBI36Build 36hg18NCBI36
Build 343126,648,184 - 126,721,748NCBI
Celera3123,575,104 - 123,648,748 (-)NCBICelera
Cytogenetic Map3q21.2NCBI
HuRef3122,541,455 - 122,614,640 (-)NCBIHuRef
CHM1_13125,128,503 - 125,202,079 (-)NCBICHM1_1
T2T-CHM13v2.03128,173,305 - 128,246,821 (-)NCBIT2T-CHM13v2.0
Snx4
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391633,071,826 - 33,119,932 (+)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl1633,071,812 - 33,120,639 (+)EnsemblGRCm39 Ensembl
GRCm381633,251,456 - 33,299,562 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1633,251,442 - 33,300,269 (+)EnsemblGRCm38mm10GRCm38
MGSCv371633,251,542 - 33,299,648 (+)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv361633,171,203 - 33,219,309 (+)NCBIMGSCv36mm8
Celera1633,735,288 - 33,783,365 (+)NCBICelera
Cytogenetic Map16B3NCBI
cM Map1623.77NCBI
Snx4
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr81180,965,965 - 81,023,234 (-)NCBIGRCr8
mRatBN7.21167,460,872 - 67,518,143 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1167,460,870 - 67,518,174 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx1176,297,930 - 76,355,201 (-)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.01168,959,778 - 69,017,046 (-)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.01167,987,014 - 68,044,293 (-)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.01170,693,381 - 70,753,620 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1170,693,366 - 70,753,632 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01173,779,997 - 73,836,594 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41169,283,047 - 69,340,448 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.11169,340,633 - 69,398,051 (-)NCBI
Celera1166,908,596 - 66,965,885 (-)NCBICelera
Cytogenetic Map11q22NCBI
Snx4
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_00495542724,520,125 - 24,579,589 (-)EnsemblChiLan1.0
ChiLan1.0NW_00495542724,520,125 - 24,579,589 (-)NCBIChiLan1.0ChiLan1.0
SNX4
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v22123,443,042 - 123,516,580 (-)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan13123,447,819 - 123,521,358 (-)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v03122,578,527 - 122,652,007 (-)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.13129,443,369 - 129,515,917 (-)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl3129,443,369 - 129,515,917 (-)Ensemblpanpan1.1panPan2
Snx4
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_024405602125,954,209 - 125,964,379 (+)NCBIHiC_Itri_2
SpeTri2.0NW_004937215127,074 - 137,281 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
SNX4
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl13134,824,043 - 134,905,359 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.113134,824,028 - 134,903,765 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
SNX4
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.12255,311,896 - 55,389,174 (+)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl2255,311,933 - 55,389,349 (+)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_023666041110,924,615 - 111,001,623 (-)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Snx4
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_0046247311,522,098 - 1,586,066 (-)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_0046247311,522,467 - 1,585,793 (-)NCBIHetGla_female_1.0HetGla 1.0hetGla2

Variants

.
Variants in SNX4
504 total Variants

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

alimentary part of gastrointestinal system circulatory system endocrine system exocrine system hemolymphoid system hepatobiliary system integumental system musculoskeletal system nervous system reproductive system respiratory system adipose tissue
High
Medium 5 5 22 6 6 6 6 6 12 8 10 6
Low
Below cutoff

Sequence


RefSeq Acc Id: ENSCAFT00000020093   ⟹   ENSCAFP00000018635
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
CanFam3.1 Ensembl3328,419,402 - 28,469,488 (-)Ensembl
RefSeq Acc Id: ENSCAFT00000067413   ⟹   ENSCAFP00000052694
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
CanFam3.1 Ensembl3328,419,128 - 28,425,961 (-)Ensembl
RefSeq Acc Id: ENSCAFT00000074990   ⟹   ENSCAFP00000062837
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
CanFam3.1 Ensembl3328,419,128 - 28,469,044 (-)Ensembl
RefSeq Acc Id: ENSCAFT00000084225   ⟹   ENSCAFP00000061068
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
CanFam3.1 Ensembl3328,450,478 - 28,469,038 (-)Ensembl
RefSeq Acc Id: ENSCAFT00000090716   ⟹   ENSCAFP00000049952
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
CanFam3.1 Ensembl3328,419,128 - 28,469,038 (-)Ensembl
RefSeq Acc Id: ENSCAFT00845049537   ⟹   ENSCAFP00845038864
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
ROS_Cfam_1.0 Ensembl3328,645,503 - 28,715,999 (-)Ensembl
RefSeq Acc Id: XM_038445201   ⟹   XP_038301129
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
ROS_Cfam_1.03328,645,502 - 28,715,994 (-)NCBI
RefSeq Acc Id: XM_038462441   ⟹   XP_038318369
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
Dog10K_Boxer_Tasha3328,435,320 - 28,505,544 (-)NCBI
RefSeq Acc Id: XM_038519450   ⟹   XP_038375378
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
UMICH_Zoey_3.13328,443,347 - 28,513,160 (-)NCBI
RefSeq Acc Id: XM_038583072   ⟹   XP_038439000
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
UU_Cfam_GSD_1.03329,107,848 - 29,178,056 (-)NCBI
RefSeq Acc Id: XM_038647490   ⟹   XP_038503418
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
UNSW_CanFamBas_1.03328,488,217 - 28,558,536 (-)NCBI
RefSeq Acc Id: ENSCAFP00000061068   ⟸   ENSCAFT00000084225
RefSeq Acc Id: ENSCAFP00000062837   ⟸   ENSCAFT00000074990
RefSeq Acc Id: ENSCAFP00000018635   ⟸   ENSCAFT00000020093
RefSeq Acc Id: ENSCAFP00000052694   ⟸   ENSCAFT00000067413
RefSeq Acc Id: ENSCAFP00000049952   ⟸   ENSCAFT00000090716
RefSeq Acc Id: XP_038375378   ⟸   XM_038519450
RefSeq Acc Id: XP_038503418   ⟸   XM_038647490
RefSeq Acc Id: XP_038301129   ⟸   XM_038445201
- UniProtKB: A0A8C0JSK1 (UniProtKB/TrEMBL),   A0A8C0P112 (UniProtKB/TrEMBL),   A0A8I3PVP5 (UniProtKB/TrEMBL),   A0A8P0PBQ2 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_038318369   ⟸   XM_038462441
- UniProtKB: A0A8P0NZU7 (UniProtKB/TrEMBL),   A0A8P0PBQ2 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_038439000   ⟸   XM_038583072
- UniProtKB: A0A8C0JSK1 (UniProtKB/TrEMBL),   A0A8C0P112 (UniProtKB/TrEMBL),   A0A8I3PVP5 (UniProtKB/TrEMBL),   A0A8P0PBQ2 (UniProtKB/TrEMBL)
RefSeq Acc Id: ENSCAFP00845038864   ⟸   ENSCAFT00845049537
Protein Domains
PX


Additional Information

Database Acc Id Source(s)
Ensembl Genes ENSCAFG00000012654 Ensembl, UniProtKB/TrEMBL
  ENSCAFG00030018655 UniProtKB/TrEMBL
  ENSCAFG00845028061 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSCAFT00000074990.2 UniProtKB/TrEMBL
  ENSCAFT00000090716.2 UniProtKB/TrEMBL
  ENSCAFT00030034461.1 UniProtKB/TrEMBL
  ENSCAFT00845049537 ENTREZGENE
  ENSCAFT00845049537.1 UniProtKB/TrEMBL
Gene3D-CATH 1.20.1270.60 UniProtKB/TrEMBL
  3.30.1520.10 UniProtKB/TrEMBL
InterPro AH/BAR_dom_sf UniProtKB/TrEMBL
  PX_dom UniProtKB/TrEMBL
  PX_dom_sf UniProtKB/TrEMBL
  PX_SNX4 UniProtKB/TrEMBL
  SNX4 UniProtKB/TrEMBL
  SNX4_BAR UniProtKB/TrEMBL
NCBI Gene SNX4 ENTREZGENE
PANTHER PTHR46596 UniProtKB/TrEMBL
  SORTING NEXIN-4 UniProtKB/TrEMBL
Pfam PF00787 UniProtKB/TrEMBL
PROSITE PS50195 UniProtKB/TrEMBL
SMART SM00312 UniProtKB/TrEMBL
Superfamily-SCOP SSF64268 UniProtKB/TrEMBL
UniProt A0A8C0JSK1 ENTREZGENE
  A0A8C0P112 ENTREZGENE, UniProtKB/TrEMBL
  A0A8I3PVP5 ENTREZGENE, UniProtKB/TrEMBL
  A0A8P0NZU7 ENTREZGENE, UniProtKB/TrEMBL
  A0A8P0PBQ2 ENTREZGENE, UniProtKB/TrEMBL
VGNC ID VGNC:46641 ENTREZGENE