Stx11 (syntaxin 11) - Rat Genome Database

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Gene: Stx11 (syntaxin 11) Rattus norvegicus
Analyze
Symbol: Stx11
Name: syntaxin 11
RGD ID: 1304744
Description: Predicted to act upstream of or within cellular response to type II interferon and leukocyte degranulation. Predicted to be located in phagocytic vesicle. Human ortholog(s) of this gene implicated in familial hemophagocytic lymphohistiocytosis 4. Orthologous to human STX11 (syntaxin 11); INTERACTS WITH 1,3-dinitrobenzene; 17beta-estradiol; 17beta-estradiol 3-benzoate.
Type: protein-coding
RefSeq Status: VALIDATED
Previously known as: LOC102549741; LOC292483; MGC116325; syntaxin-11; uncharacterized LOC102549741
RGD Orthologs
Human
Mouse
Chinchilla
Bonobo
Dog
Pig
Green Monkey
Naked Mole-Rat
Alliance Genes
More Info more info ...
Latest Assembly: mRatBN7.2 - mRatBN7.2 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr819,111,216 - 9,140,227 (-)NCBIGRCr8
mRatBN7.217,293,427 - 7,320,060 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl17,289,976 - 7,320,164 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx16,994,983 - 7,021,636 (-)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0112,994,060 - 13,020,713 (-)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.017,277,231 - 7,303,878 (-)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.017,039,160 - 7,064,870 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl17,039,162 - 7,064,870 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.018,676,470 - 8,678,091 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.417,683,757 - 7,685,378 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
Celera15,794,962 - 5,820,749 (-)NCBICelera
Cytogenetic Map1p13NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene-Chemical Interaction Annotations     Click to see Annotation Detail View
Gene Ontology Annotations     Click to see Annotation Detail View

Cellular Component

Molecular Function

References

References - curated
# Reference Title Reference Citation
1. 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.
2. Rat ISS GO annotations from GOA human gene data--August 2006 GOA data from the GO Consortium
3. Rat ISS GO annotations from MGI mouse gene data--August 2006 MGD data from the GO Consortium
4. OMIM Disease Annotation Pipeline OMIM Disease Annotation Pipeline
5. GOA pipeline RGD automated data pipeline
6. ClinVar Automated Import and Annotation Pipeline RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
7. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
Additional References at PubMed
PMID:12477932   PMID:19144319   PMID:23042080   PMID:23190531  


Genomics

Comparative Map Data
Stx11
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr819,111,216 - 9,140,227 (-)NCBIGRCr8
mRatBN7.217,293,427 - 7,320,060 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl17,289,976 - 7,320,164 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx16,994,983 - 7,021,636 (-)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0112,994,060 - 13,020,713 (-)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.017,277,231 - 7,303,878 (-)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.017,039,160 - 7,064,870 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl17,039,162 - 7,064,870 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.018,676,470 - 8,678,091 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.417,683,757 - 7,685,378 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
Celera15,794,962 - 5,820,749 (-)NCBICelera
Cytogenetic Map1p13NCBI
STX11
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh386144,139,963 - 144,191,939 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl6144,150,487 - 144,191,939 (+)EnsemblGRCh38hg38GRCh38
GRCh376144,471,654 - 144,513,076 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 366144,513,362 - 144,551,196 (+)NCBINCBI36Build 36hg18NCBI36
Build 346144,513,361 - 144,551,194NCBI
Celera6145,212,022 - 145,253,445 (+)NCBICelera
Cytogenetic Map6q24.2NCBI
HuRef6142,035,103 - 142,076,591 (+)NCBIHuRef
CHM1_16144,734,436 - 144,775,861 (+)NCBICHM1_1
T2T-CHM13v2.06145,332,677 - 145,384,568 (+)NCBIT2T-CHM13v2.0
Stx11
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391012,813,961 - 12,840,242 (-)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl1012,813,953 - 12,840,042 (-)EnsemblGRCm39 Ensembl
GRCm381012,938,217 - 12,964,498 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1012,938,209 - 12,964,298 (-)EnsemblGRCm38mm10GRCm38
MGSCv371012,659,787 - 12,684,065 (-)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv361012,628,155 - 12,654,478 (-)NCBIMGSCv36mm8
Celera1012,848,741 - 12,872,780 (-)NCBICelera
Cytogenetic Map10A2NCBI
cM Map104.54NCBI
Stx11
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_00495543616,303,189 - 16,327,854 (-)EnsemblChiLan1.0
ChiLan1.0NW_00495543616,303,169 - 16,327,854 (-)NCBIChiLan1.0ChiLan1.0
STX11
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v25164,131,139 - 164,178,869 (+)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan16162,025,614 - 162,073,337 (+)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v06141,924,656 - 141,974,579 (+)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.16146,652,435 - 146,692,553 (+)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl6146,688,670 - 146,689,533 (+)Ensemblpanpan1.1panPan2
STX11
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1135,600,440 - 35,645,421 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl135,601,133 - 35,644,819 (+)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha136,493,224 - 36,538,083 (+)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.0135,779,446 - 35,824,387 (+)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl135,822,406 - 35,823,269 (+)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.1135,641,739 - 35,685,483 (+)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.0135,524,385 - 35,569,250 (+)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0135,835,577 - 35,880,492 (+)NCBIUU_Cfam_GSD_1.0
STX11
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl121,127,564 - 21,159,694 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.1121,127,871 - 21,170,321 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.2123,479,610 - 23,510,500 (-)NCBISscrofa10.2Sscrofa10.2susScr3
STX11
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.11329,045,674 - 29,084,602 (-)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl1329,048,119 - 29,048,982 (-)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_0236660401,177,543 - 1,217,221 (-)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Stx11
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_00462475310,148,416 - 10,191,153 (-)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_00462475310,150,811 - 10,180,794 (-)NCBIHetGla_female_1.0HetGla 1.0hetGla2

Variants

.
Variants in Stx11
364 total Variants
miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:88
Count of miRNA genes:68
Interacting mature miRNAs:72
Transcripts:ENSRNOT00000019983
Prediction methods:Microtar, 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 (mRatBN7.2)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
1354647Despr8Despair related QTL 80.0000341locomotor behavior trait (VT:0001392)amount of experiment time spent in a discrete space in an experimental apparatus (CMO:0000958)1124744506Rat
2298546Neuinf4Neuroinflammation QTL 45.1nervous system integrity trait (VT:0010566)spinal cord RT1-B protein level (CMO:0002132)1128736750Rat
2313053Bss51Bone structure and strength QTL 513.80.0001tibia length (VT:0004357)tibia length (CMO:0000450)1132356093Rat
2313070Bss52Bone structure and strength QTL 524.40.0001body length (VT:0001256)body length (CMO:0000013)1132356093Rat
2313090Bmd69Bone mineral density QTL 694.40.0001tibia mineral mass (VT:1000283)compact volumetric bone mineral density (CMO:0001730)1132356093Rat
738020Pia8Pristane induced arthritis QTL 84.7joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)1165833076Rat
1578650Bmd6Bone mineral density QTL 612.2femur mineral mass (VT:0010011)total volumetric bone mineral density (CMO:0001728)150910843284926Rat
1578651Bmd7Bone mineral density QTL 714.2femur mineral mass (VT:0010011)compact volumetric bone mineral density (CMO:0001730)150910843284926Rat
1578669Bss9Bone structure and strength QTL 96.3femur morphology trait (VT:0000559)bone trabecular cross-sectional area (CMO:0002311)150910843284926Rat
1554320Bmd1Bone mineral density QTL 112.20.0001femur mineral mass (VT:0010011)volumetric bone mineral density (CMO:0001553)150910886060548Rat
1600360Mcs16Mammary carcinoma susceptibility QTL 162.4mammary gland integrity trait (VT:0010552)mammary tumor number (CMO:0000343)1224439043433040Rat
1300170Rf6Renal function QTL 63.14renal blood flow trait (VT:2000006)absolute change in renal blood flow rate (CMO:0001168)1416280711481482Rat
7421626Bp360Blood pressure QTL 3600.001arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)1439328949393289Rat
631688Hcas2Hepatocarcinoma susceptibility QTL 230.0001liver integrity trait (VT:0010547)liver tumorous lesion number (CMO:0001068)15925874115540829Rat
4889451Eae29Experimental allergic encephalomyelitis QTL 295.51nervous system integrity trait (VT:0010566)experimental autoimmune encephalomyelitis severity score (CMO:0001419)1592587724697545Rat


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 renal system reproductive system respiratory system appendage
High
Medium 1 9 10
Low 3 43 42 27 10 27 6 7 49 35 33 1 6
Below cutoff 14 14 14 2 4 25 6 2

Sequence


Reference Sequences
RefSeq Acc Id: ENSRNOT00000019983   ⟹   ENSRNOP00000073255
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl17,289,976 - 7,320,164 (-)Ensembl
Rnor_6.0 Ensembl17,039,162 - 7,064,870 (-)Ensembl
RefSeq Acc Id: NM_001025638   ⟹   NP_001020809
RefSeq Status: VALIDATED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr819,113,594 - 9,140,219 (-)NCBI
mRatBN7.217,293,427 - 7,320,060 (-)NCBI
Rnor_6.017,039,160 - 7,064,870 (-)NCBI
Rnor_5.018,676,470 - 8,678,091 (-)NCBI
RGSC_v3.417,683,757 - 7,685,378 (-)RGD
Celera15,794,962 - 5,820,749 (-)NCBI
Sequence:
RefSeq Acc Id: XM_008758601   ⟹   XP_008756823
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr819,111,216 - 9,140,227 (-)NCBI
mRatBN7.217,293,576 - 7,319,996 (-)NCBI
Rnor_6.017,039,309 - 7,064,795 (-)NCBI
Sequence:
Protein Sequences
Protein RefSeqs NP_001020809 (Get FASTA)   NCBI Sequence Viewer  
  XP_008756823 (Get FASTA)   NCBI Sequence Viewer  
GenBank Protein AAH99159 (Get FASTA)   NCBI Sequence Viewer  
Ensembl Protein ENSRNOP00000073255
  ENSRNOP00000073255.1
Reference Protein Sequences
RefSeq Acc Id: NP_001020809   ⟸   NM_001025638
- UniProtKB: A0A0G2K516 (UniProtKB/TrEMBL),   A6JP51 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_008756823   ⟸   XM_008758601
- Peptide Label: isoform X1
- UniProtKB: A0A0G2K516 (UniProtKB/TrEMBL),   A6JP51 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: ENSRNOP00000073255   ⟸   ENSRNOT00000019983
Protein Domains
t-SNARE coiled-coil homology

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-A0A0G2K516-F1-model_v2 AlphaFold A0A0G2K516 1-287 view protein structure

Transcriptome

eQTL   View at Phenogen
WGCNA   View at Phenogen
Tissue/Strain Expression   View at Phenogen

Promoters
RGD ID:13689491
Promoter ID:EPDNEW_R16
Type:multiple initiation site
Name:Stx11_1
Description:syntaxin 11
SO ACC ID:SO:0000170
Source:EPDNEW (Eukaryotic Promoter Database, http://epd.vital-it.ch/)
Experiment Methods:Single-end sequencing.
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.017,064,883 - 7,064,943EPDNEW

Additional Information

Database Acc Id Source(s)
AGR Gene RGD:1304744 AgrOrtholog
BioCyc Gene G2FUF-62379 BioCyc
Ensembl Genes ENSRNOG00000014902 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000019983.5 UniProtKB/TrEMBL
Gene3D-CATH 1.20.5.110 UniProtKB/TrEMBL
  1.20.58.70 UniProtKB/TrEMBL
IMAGE_CLONE IMAGE:7381603 IMAGE-MGC_LOAD
InterPro Syntaxin UniProtKB/TrEMBL
  Syntaxin/epimorphin_CS UniProtKB/TrEMBL
  Syntaxin11_SNARE UniProtKB/TrEMBL
  Syntaxin_N UniProtKB/TrEMBL
  t-SNARE UniProtKB/TrEMBL
  T_SNARE_dom UniProtKB/TrEMBL
KEGG Report rno:292483 UniProtKB/TrEMBL
MGC_CLONE MGC:116325 IMAGE-MGC_LOAD
NCBI Gene 292483 ENTREZGENE
PANTHER PTHR19957 UniProtKB/TrEMBL
  PTHR19957:SF30 UniProtKB/TrEMBL
Pfam Syntaxin UniProtKB/TrEMBL
PhenoGen Stx11 PhenoGen
PROSITE SYNTAXIN UniProtKB/TrEMBL
  T_SNARE UniProtKB/TrEMBL
RatGTEx ENSRNOG00000014902 RatGTEx
SMART SynN UniProtKB/TrEMBL
  t_SNARE UniProtKB/TrEMBL
Superfamily-SCOP t-snare UniProtKB/TrEMBL
UniProt A0A0G2K516 ENTREZGENE, UniProtKB/TrEMBL
  A6JP51 ENTREZGENE, UniProtKB/TrEMBL
  Q4KLK0_RAT UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2014-05-13 Stx11  syntaxin 11  LOC102549741  uncharacterized LOC102549741  Data merged from RGD:7611680 737654 APPROVED
2013-12-18 LOC102549741  uncharacterized LOC102549741      Symbol and Name status set to provisional 70820 PROVISIONAL
2005-12-06 Stx11  syntaxin 11  Stx11_predicted  syntaxin 11 (predicted)  Symbol and Name updated 1559027 APPROVED
2005-01-12 Stx11_predicted  syntaxin 11 (predicted)      Symbol and Name status set to approved 70820 APPROVED