Stx6 (syntaxin 6) - Rat Genome Database

Send us a Message



Submit Data |  Help |  Video Tutorials |  News |  Publications |  Download |  REST API |  Citing RGD |  Contact   
Gene: Stx6 (syntaxin 6) Rattus norvegicus
Analyze
Symbol: Stx6
Name: syntaxin 6
RGD ID: 61915
Description: Predicted to enable SNAP receptor activity and syntaxin binding activity. Involved in endocytic recycling; retrograde transport, endosome to Golgi; and synaptic vesicle to endosome fusion. Located in recycling endosome; synaptic vesicle; and trans-Golgi network membrane. Is active in synaptic vesicle membrane. Orthologous to human STX6 (syntaxin 6); INTERACTS WITH 2-methoxyethanol; ammonium chloride; bisphenol A.
Type: protein-coding
RefSeq Status: PROVISIONAL
Previously known as: MGC93348; Syn6; syntaxin-6
RGD Orthologs
Human
Mouse
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Orthologs
More Info more info ...
Latest Assembly: mRatBN7.2 - mRatBN7.2 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr81369,882,647 - 69,928,895 (+)NCBIGRCr8
mRatBN7.21367,332,329 - 67,378,580 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1367,332,314 - 67,378,576 (+)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx1369,917,560 - 69,963,589 (+)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.01371,231,256 - 71,277,146 (+)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.01368,491,771 - 68,538,463 (+)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.01372,804,218 - 72,850,757 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1372,804,218 - 72,852,967 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01377,739,763 - 77,785,254 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41370,121,864 - 70,169,379 (+)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.11370,135,943 - 70,183,455 (+)NCBI
Celera1367,207,720 - 67,253,510 (+)NCBICelera
Cytogenetic Map13q21NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene Ontology Annotations     Click to see Annotation Detail View

Cellular Component

Molecular Function

References

References - curated
# Reference Title Reference Citation
1. Synaptotagmin IV is necessary for the maturation of secretory granules in PC12 cells. Ahras M, etal., J Cell Biol. 2006 Apr 24;173(2):241-51. Epub 2006 Apr 17.
2. A new syntaxin family member implicated in targeting of intracellular transport vesicles. Bock JB, etal., J Biol Chem 1996 Jul 26;271(30):17961-5.
3. Syntaxin 6 functions in trans-Golgi network vesicle trafficking. Bock JB, etal., Mol Biol Cell. 1997 Jul;8(7):1261-71.
4. Phylogenetic-based propagation of functional annotations within the Gene Ontology consortium. Gaudet P, etal., Brief Bioinform. 2011 Sep;12(5):449-62. doi: 10.1093/bib/bbr042. Epub 2011 Aug 27.
5. Rat ISS GO annotations from GOA human gene data--August 2006 GOA data from the GO Consortium
6. SNAREs define targeting specificity of trafficking vesicles by combinatorial interaction with tethering factors. Koike S and Jahn R, Nat Commun. 2019 Apr 8;10(1):1608. doi: 10.1038/s41467-019-09617-9.
7. Rat ISS GO annotations from MGI mouse gene data--August 2006 MGD data from the GO Consortium
8. Electronic Transfer of LocusLink and RefSeq Data NCBI rat LocusLink and RefSeq merged data July 26, 2002
9. A novel syntaxin 6-interacting protein, SHIP164, regulates syntaxin 6-dependent sorting from early endosomes. Otto GP, etal., Traffic. 2010 May;11(5):688-705. doi: 10.1111/j.1600-0854.2010.01049.x.
10. GOA pipeline RGD automated data pipeline
11. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
12. Mammalian late vacuole protein sorting orthologues participate in early endosomal fusion and interact with the cytoskeleton. Richardson SC, etal., Mol Biol Cell 2004 Mar;15(3):1197-210. Epub 2003 Dec 10.
13. Evidence for early endosome-like fusion of recently endocytosed synaptic vesicles. Rizzoli SO, etal., Traffic. 2006 Sep;7(9):1163-76.
14. The Rab5 effector EEA1 interacts directly with syntaxin-6. Simonsen A, etal., J Biol Chem. 1999 Oct 8;274(41):28857-60.
15. Generation and initial analysis of more than 15,000 full-length human and mouse cDNA sequences. Strausberg RL, etal., Proc Natl Acad Sci U S A. 2002 Dec 24;99(26):16899-903. Epub 2002 Dec 11.
16. Molecular anatomy of a trafficking organelle. Takamori S, etal., Cell. 2006 Nov 17;127(4):831-46.
17. Composition of isolated synaptic boutons reveals the amounts of vesicle trafficking proteins. Wilhelm BG, etal., Science. 2014 May 30;344(6187):1023-8. doi: 10.1126/science.1252884.
Additional References at PubMed
PMID:11384996   PMID:12082176   PMID:12857877   PMID:14622145   PMID:14742717   PMID:15489334   PMID:15689499   PMID:15800058   PMID:15886206   PMID:16154903   PMID:16428329   PMID:17003038  
PMID:17003121   PMID:18406529   PMID:19224922   PMID:19338761   PMID:19620288   PMID:22190682   PMID:22783020   PMID:22871113   PMID:23485813   PMID:23677696   PMID:25799061  


Genomics

Comparative Map Data
Stx6
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr81369,882,647 - 69,928,895 (+)NCBIGRCr8
mRatBN7.21367,332,329 - 67,378,580 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1367,332,314 - 67,378,576 (+)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx1369,917,560 - 69,963,589 (+)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.01371,231,256 - 71,277,146 (+)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.01368,491,771 - 68,538,463 (+)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.01372,804,218 - 72,850,757 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1372,804,218 - 72,852,967 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01377,739,763 - 77,785,254 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41370,121,864 - 70,169,379 (+)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.11370,135,943 - 70,183,455 (+)NCBI
Celera1367,207,720 - 67,253,510 (+)NCBICelera
Cytogenetic Map13q21NCBI
STX6
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh381180,972,725 - 181,022,870 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl1180,972,712 - 181,023,121 (-)EnsemblGRCh38hg38GRCh38
GRCh371180,941,861 - 180,992,006 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 361179,208,798 - 179,258,669 (-)NCBINCBI36Build 36hg18NCBI36
Build 341177,673,835 - 177,723,703NCBI
Celera1154,049,189 - 154,099,059 (-)NCBICelera
Cytogenetic Map1q25.3NCBI
HuRef1152,173,031 - 152,222,901 (-)NCBIHuRef
CHM1_11182,364,849 - 182,414,723 (-)NCBICHM1_1
T2T-CHM13v2.01180,327,972 - 180,378,137 (-)NCBIT2T-CHM13v2.0
Stx6
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391155,034,374 - 155,083,405 (+)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl1155,034,461 - 155,084,002 (+)EnsemblGRCm39 Ensembl
GRCm381155,158,628 - 155,207,567 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1155,158,715 - 155,208,256 (+)EnsemblGRCm38mm10GRCm38
MGSCv371157,005,833 - 157,050,647 (+)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv361156,920,960 - 156,965,735 (+)NCBIMGSCv36mm8
Celera1157,590,422 - 157,635,333 (+)NCBICelera
Cytogenetic Map1G3NCBI
cM Map166.46NCBI
Stx6
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_00495540620,048,155 - 20,089,906 (-)EnsemblChiLan1.0
ChiLan1.0NW_00495540620,042,552 - 20,089,853 (-)NCBIChiLan1.0ChiLan1.0
STX6
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v2168,748,337 - 68,798,313 (+)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan1168,406,649 - 68,456,600 (+)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v01156,450,202 - 156,500,143 (-)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.11160,117,825 - 160,167,314 (-)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl1160,117,825 - 160,167,314 (-)Ensemblpanpan1.1panPan2
STX6
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1714,452,663 - 14,506,120 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl714,458,404 - 14,556,917 (-)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha714,030,381 - 14,083,562 (-)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.0714,179,873 - 14,232,084 (-)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl714,184,065 - 14,232,056 (-)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.1714,089,893 - 14,143,515 (-)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.0714,196,719 - 14,249,919 (-)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0714,320,679 - 14,373,902 (-)NCBIUU_Cfam_GSD_1.0
Stx6
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440934490,515,308 - 90,558,479 (+)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_0049364818,362,050 - 8,399,737 (+)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_0049364818,362,059 - 8,405,228 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
STX6
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl9122,529,727 - 122,580,608 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.19122,533,737 - 122,580,631 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.29134,569,941 - 134,616,721 (-)NCBISscrofa10.2Sscrofa10.2susScr3
STX6
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.12548,380,359 - 48,427,279 (+)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl2548,397,712 - 48,426,676 (+)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_02366605549,763,242 - 49,813,281 (+)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Stx6
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_0046247711,227,052 - 1,265,158 (-)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_0046247711,222,809 - 1,264,662 (-)NCBIHetGla_female_1.0HetGla 1.0hetGla2

Variants

.
Variants in Stx6
171 total Variants
miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:200
Count of miRNA genes:134
Interacting mature miRNAs:163
Transcripts:ENSRNOT00000035145
Prediction methods:Miranda, 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.