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Gene: Stx12 (syntaxin 12) Chinchilla lanigera

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Symbol:

Stx12

Name:

syntaxin 12

RGD ID:

8896415

Description:

INVOLVED IN autophagosome assembly (ortholog); cholesterol efflux (ortholog); endocytic recycling (ortholog); FOUND IN BLOC-1 complex (ortholog); glutamatergic synapse (ortholog); Golgi apparatus (ortholog)

Type:

protein-coding

RefSeq Status:

MODEL

Previously known as:

syntaxin-12

RGD Orthologs

Alliance Orthologs

More Info

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More Info

Species	Gene symbol and name	Data Source	Assertion derived from	less info ...
Orthologs ¹				less info ...
Homo sapiens (human):	STX12 (syntaxin 12)	NCBI	Ortholog
Mus musculus (house mouse):	Stx12 (syntaxin 12)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Rattus norvegicus (Norway rat):	Stx12 (syntaxin 12)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Pan paniscus (bonobo/pygmy chimpanzee):	STX12 (syntaxin 12)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Canis lupus familiaris (dog):	STX12 (syntaxin 12)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Ictidomys tridecemlineatus (thirteen-lined ground squirrel):	Stx12 (syntaxin 12)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Sus scrofa (pig):	STX12 (syntaxin 12)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Chlorocebus sabaeus (green monkey):	STX12 (syntaxin 12)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Heterocephalus glaber (naked mole-rat):	Stx12 (syntaxin 12)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline

Latest Assembly:

ChiLan1.0 - Chinchilla ChiLan1.0 Assembly

Position:

Chinchilla Assembly	Chr	Position (strand)	Source	Genome Browsers
Chinchilla Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
ChiLan1.0 Ensembl	NW_004955452	6,977,101 - 7,015,281 (+)	Ensembl	ChiLan1.0
ChiLan1.0	NW_004955452	6,977,813 - 7,015,281 (+)	NCBI	ChiLan1.0	ChiLan1.0

JBrowse:

View Region in Genome Browser (JBrowse)

Model

Annotation Click to see Annotation Detail View

Gene Ontology Annotations Click to see Annotation Detail View

Biological Process

autophagosome assembly (ISO)

cholesterol efflux (ISO)

endocytic recycling (ISO)

protein stabilization (ISO)

regulation of postsynaptic membrane neurotransmitter receptor levels (ISO)

synaptic vesicle to endosome fusion (ISO)

Cellular Component

BLOC-1 complex (ISO)

glutamatergic synapse (ISO)

Golgi apparatus (ISO)

intracellular membrane-bounded organelle (ISO)

membrane raft (ISO)

nucleoplasm (ISO)

phagocytic vesicle (ISO)

phagophore assembly site (ISO)

postsynaptic recycling endosome membrane (ISO)

recycling endosome (ISO)

SNARE complex (ISO)

synaptic vesicle membrane (ISO)

vesicle (ISO)

Molecular Function

protein binding (ISO)

References

References - curated

#	Reference Title	Reference Citation
1.	Transitive Annotation Pipeline	Automated assignment of GO, PW and RDO ISO annotations across species

Additional References at PubMed

PMID:22301074	PMID:30032202

Genomics

Comparative Map Data

Stx12
(Chinchilla lanigera - long-tailed chinchilla)

Chinchilla Assembly	Chr	Position (strand)	Source	Genome Browsers
Chinchilla Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
ChiLan1.0 Ensembl	NW_004955452	6,977,101 - 7,015,281 (+)	Ensembl	ChiLan1.0
ChiLan1.0	NW_004955452	6,977,813 - 7,015,281 (+)	NCBI	ChiLan1.0	ChiLan1.0

STX12
(Homo sapiens - human)

Human Assembly	Chr	Position (strand)	Source	Genome Browsers
Human Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCh38	1	27,773,219 - 27,824,443 (+)	NCBI	GRCh38	GRCh38	hg38	GRCh38
GRCh38.p14 Ensembl	1	27,773,219 - 27,824,443 (+)	Ensembl	GRCh38		hg38	GRCh38
GRCh37	1	28,099,730 - 28,150,954 (+)	NCBI	GRCh37	GRCh37	hg19	GRCh37
Build 36	1	27,972,281 - 28,023,550 (+)	NCBI	NCBI36	Build 36	hg18	NCBI36
Build 34	1	27,783,924 - 27,834,956	NCBI
Celera	1	26,495,339 - 26,546,590 (+)	NCBI		Celera
Cytogenetic Map	1	p35.3	NCBI
HuRef	1	26,355,806 - 26,407,148 (+)	NCBI		HuRef
CHM1_1	1	28,214,883 - 28,266,152 (+)	NCBI		CHM1_1
T2T-CHM13v2.0	1	27,614,513 - 27,665,738 (+)	NCBI		T2T-CHM13v2.0

Stx12
(Mus musculus - house mouse)

Mouse Assembly	Chr	Position (strand)	Source	Genome Browsers
Mouse Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCm39	4	132,581,375 - 132,611,769 (-)	NCBI	GRCm39	GRCm39	mm39
GRCm39 Ensembl	4	132,580,812 - 132,611,820 (-)	Ensembl		GRCm39 Ensembl
GRCm38	4	132,854,064 - 132,884,458 (-)	NCBI	GRCm38	GRCm38	mm10	GRCm38
GRCm38.p6 Ensembl	4	132,853,501 - 132,884,509 (-)	Ensembl	GRCm38		mm10	GRCm38
MGSCv37	4	132,409,979 - 132,440,373 (-)	NCBI	GRCm37	MGSCv37	mm9	NCBIm37
MGSCv36	4	132,126,140 - 132,156,534 (-)	NCBI		MGSCv36	mm8
Celera	4	131,015,600 - 131,045,689 (-)	NCBI		Celera
Cytogenetic Map	4	D2.3	NCBI
cM Map	4	66.01	NCBI

Stx12
(Rattus norvegicus - Norway rat)

Rat Assembly	Chr	Position (strand)	Source	Genome Browsers
Rat Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCr8	5	150,347,554 - 150,376,426 (-)	NCBI		GRCr8
mRatBN7.2	5	145,062,978 - 145,092,423 (-)	NCBI	mRatBN7.2	mRatBN7.2
mRatBN7.2 Ensembl	5	145,063,587 - 145,092,377 (-)	Ensembl		mRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx	5	147,763,708 - 147,791,950 (-)	NCBI	Rnor_SHR	UTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0	5	149,533,297 - 149,561,548 (-)	NCBI	Rnor_SHRSP	UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0	5	149,522,088 - 149,550,333 (-)	NCBI	Rnor_WKY	UTH_Rnor_WKY_Bbb_1.0
Rnor_6.0	5	151,044,050 - 151,072,893 (-)	NCBI	Rnor6.0	Rnor_6.0	rn6	Rnor6.0
Rnor_6.0 Ensembl	5	151,044,329 - 151,072,904 (-)	Ensembl	Rnor6.0		rn6	Rnor6.0
Rnor_5.0	5	154,710,849 - 154,740,301 (-)	NCBI	Rnor5.0	Rnor_5.0	rn5	Rnor5.0
RGSC_v3.4	5	152,261,969 - 152,290,210 (+)	NCBI	RGSC3.4	RGSC_v3.4	rn4	RGSC3.4
RGSC_v3.1	5	152,272,085 - 152,298,839 (+)	NCBI
Celera	5	143,487,210 - 143,515,451 (-)	NCBI		Celera
Cytogenetic Map	5	q36	NCBI

STX12
(Pan paniscus - bonobo/pygmy chimpanzee)

Bonobo Assembly	Chr	Position (strand)	Source	Genome Browsers
Bonobo Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
NHGRI_mPanPan1-v2	1	199,026,935 - 199,077,999 (-)	NCBI		NHGRI_mPanPan1-v2
NHGRI_mPanPan1	1	198,143,414 - 198,194,453 (-)	NCBI		NHGRI_mPanPan1
Mhudiblu_PPA_v0	1	27,035,807 - 27,086,825 (+)	NCBI	Mhudiblu_PPA_v0	Mhudiblu_PPA_v0	panPan3
PanPan1.1	1	28,076,625 - 28,127,666 (+)	NCBI	panpan1.1	PanPan1.1	panPan2
PanPan1.1 Ensembl	1	28,076,625 - 28,130,032 (+)	Ensembl	panpan1.1		panPan2

STX12
(Canis lupus familiaris - dog)

Dog Assembly	Chr	Position (strand)	Source	Genome Browsers
Dog Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
CanFam3.1	2	72,546,178 - 72,582,706 (-)	NCBI	CanFam3.1	CanFam3.1	canFam3	CanFam3.1
CanFam3.1 Ensembl	2	72,547,608 - 72,582,660 (-)	Ensembl	CanFam3.1		canFam3	CanFam3.1
Dog10K_Boxer_Tasha	2	69,123,661 - 69,160,555 (-)	NCBI		Dog10K_Boxer_Tasha
ROS_Cfam_1.0	2	73,107,226 - 73,144,440 (-)	NCBI		ROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl	2	73,107,230 - 73,144,560 (-)	Ensembl		ROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.1	2	69,934,023 - 69,970,932 (-)	NCBI		UMICH_Zoey_3.1
UNSW_CanFamBas_1.0	2	70,944,773 - 70,981,653 (-)	NCBI		UNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0	2	71,941,193 - 71,978,103 (-)	NCBI		UU_Cfam_GSD_1.0

Stx12
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)

Squirrel Assembly	Chr	Position (strand)	Source	Genome Browsers
Squirrel Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
HiC_Itri_2	NW_024405058	46,194,314 - 46,231,431 (+)	NCBI		HiC_Itri_2
SpeTri2.0 Ensembl	NW_004936474	12,019,041 - 12,060,213 (+)	Ensembl	SpeTri2.0	SpeTri2.0 Ensembl
SpeTri2.0	NW_004936474	12,019,099 - 12,057,028 (+)	NCBI	SpeTri2.0	SpeTri2.0		SpeTri2.0

STX12
(Sus scrofa - pig)

Pig Assembly	Chr	Position (strand)	Source	Genome Browsers
Pig Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
Sscrofa11.1 Ensembl	6	84,918,678 - 84,960,720 (+)	Ensembl	Sscrofa11.1		susScr11	Sscrofa11.1
Sscrofa11.1	6	84,918,827 - 84,960,235 (+)	NCBI	Sscrofa11.1	Sscrofa11.1	susScr11	Sscrofa11.1
Sscrofa10.2	6	78,460,556 - 78,501,980 (+)	NCBI	Sscrofa10.2	Sscrofa10.2	susScr3

STX12
(Chlorocebus sabaeus - green monkey)

Green Monkey Assembly	Chr	Position (strand)	Source	Genome Browsers
Green Monkey Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
ChlSab1.1	20	104,966,763 - 105,020,908 (-)	NCBI	ChlSab1.1	ChlSab1.1	chlSab2
ChlSab1.1 Ensembl	20	104,966,581 - 105,020,901 (-)	Ensembl	ChlSab1.1	ChlSab1.1 Ensembl	chlSab2
Vero_WHO_p1.0	NW_023666033	11,443,668 - 11,494,250 (+)	NCBI	Vero_WHO_p1.0	Vero_WHO_p1.0

Stx12
(Heterocephalus glaber - naked mole-rat)

Naked Mole-Rat Assembly	Chr	Position (strand)	Source	Genome Browsers
Naked Mole-Rat Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
HetGla_female_1.0 Ensembl	NW_004624764	11,620,439 - 11,664,410 (+)	Ensembl	HetGla_female_1.0	HetGla_female_1.0 Ensembl	hetGla2
HetGla 1.0	NW_004624764	11,620,527 - 11,665,829 (+)	NCBI	HetGla_female_1.0	HetGla 1.0	hetGla2

Expression

RNA-SEQ Expression

Click on a value in the shaded box below the category label to view a detailed expression data table for that system.

Sequence

Nucleotide Sequences


RefSeq Transcripts	XM_005394929	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
GenBank Nucleotide	AGCD01044130	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	AGCD01044131	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	GBDF01156206	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles

Ensembl Acc Id:

ENSCLAT00000020328 ⟹ ENSCLAP00000020133

Type:

CODING

Position:

Chinchilla Assembly	Chr	Position (strand)	Source
ChiLan1.0 Ensembl	NW_004955452	6,977,101 - 7,015,281 (+)	Ensembl

RefSeq Acc Id:

XM_005394929 ⟹ XP_005394986

Type:

CODING

Position:

Chinchilla Assembly	Chr	Position (strand)	Source
ChiLan1.0	NW_004955452	6,977,813 - 7,015,281 (+)	NCBI

Sequence:

show sequence

CGCACGCAGCCTCCGTCCCAGCCCCTTCCCCGCCCTTTCTCTTCCCGGTTTGTGTCAGCCTGTG
GGTCCTGTCTGCTGGCTGCTTCCGGTAGGAGCGCCTAGTAGGGCGAGCCGGTCTCAGCTCCTCG
TCATGTCCTACGGACCCTTAGACATGTACCGGAATCCGGGGCCTTCGGGGCCCCAGCTCCGGGA
CTTCAACAGCATCATCCAGACCTGCAGCGGCAATATCCAGCGGATCAGCCAAGCCACCGCTCAG
ATAAAGAATTTGATGAGCCAACTAGGAACGAAGCAGGACTCAAGCAAGCTACAAGAGAATCTGC
AACAGTTACAGCACTCCACAAACCAGCTCGCCAAGGAAACCAATGAATTGCTGAAGGAATTAGG
GTCCCTGCCCCTTCCCTTATCTACTTCAGAGCAGCGTCAGCAGAAACTCCAGAAGGAGCGCCTC
ATGAGTGACTTCTCCGCGGCCTTAAACAACTTCCAGGCTGTGCAGAGAAGGGTGTCAGAGAAGG
AGAAGGAGAGCATTGCCAGAGCGAGAGCCGGGTCGCGTCTTTCTGCAGAAGAGAGGCAAAGAGA
GGAGCAGCTCGTCTCATTTGACAGCCATGAGGAGTGGAACCAGATGCAGAGCCAGGAGGACGAG
GCAGCCGTCACTGAGCAGGACCTGGAACTTATCAAAGAGAGGGAAACGGCCATTCGGCAGTTGG
AGGCTGACATTTTGGACGTCAATCAAATATTTAAAGATTTGGCTATGATGATCCATGACCAGGG
TGATCTGATTGATAGCATAGAAGCCAATGTGGAAAGCTCCGAAGTGCACGTGGAAAGAGGCGCT
GATCAGTTACAGCGAGCTGCTTACTATCAGAAAAAATCTCGCAAGAAGATGTGTATCCTGATGC
TTGTCCTGTCAGTGATGATTGCAGTCTTGGGACTTGTTATCTGGCTAGTTTCTAAATGAAGTGT
GATTGCCTCAGAGCCTTCTCCTGCTGAGTTGTTTTCAAGGGCAAGTGCTTGTTGGAGTCCTCTT
GCCAGAACAAACTGATCACGAGAAGAGAGCGTACATCAGAACATCCTGTAATAATTTAGTTAGA
AACTAACTACTAACTAGTCCTTGGAATTAGTGACCTATGAAGACAGTATTTATCAATTTGTGTA
TACATTTTATTGATTTCTCAAATTAGGAATTAATTTATGTCGACTTTGCTTTCTCTTATATTTT
GATTGACCTTTGTCCCAAGCATTGGCTGAAAATTCCATTATAGATATTCTTCTTGATAGATGAC
ACTACACTCTCATAATGTTGTCTTTTTATGTGTATACAAAATTCACCTTTTTACTAGTAACAGA
TTATTTTCTGGCACGCAGCATACTGAAGTCTGCCACAAACTGTATAATAAGCCAGCAGTTTTTA
TTATTTAACAATTTACTTTGAATTTCTAAGAAGTCTGTTCTTTGTTTTGCAAGATTTTGACATT
ATATTTAACTGGAAAGTAAAAGAATTACACATGTGATTGAGATTAAATGAGAAATACCTATTTG
AGTTTATCAGTTGCTGGGGTATGTGTCAATCTGAGTTTAAAGTTTACTTTATTATCTGCTCGTG
TTGTCCACAGCAGTTTAACCTTATACACACTAAGTAAGAGCTCCCTTTTTAAAAGAGATTAATT
TCATTAATATTCCTGTAGGGGTCCCACTCCCACCTGTCTGCATAGAAAAGGAGAATTAGACATA
GCATGCTTTTGGAAAGCAAATAATTGTTTGGAATGATTTAATCTTTTCGTTGTTGTTGTTGTTC
TTCGCTTGTGGCTCTACATTCCTGGTGAGTGATGAACGTAGCCATCAAAAGGCTGTCTGTCCTC
TACCCTATAGGGTGTTTGATGGCAGGAAGATTAAGTTCGACTGAAGTTGAGTTTAAAACCCAGC
CCAGTGAGCCTGATGATAAAGTCAAGAAAAGGCTCACTGTTGTAAATAAGACTGGTTTGGAATA
GTGGTGTTAGACCCATCCTAACTTACGAACAAGAGATTAATCTCTCCATGAATAGTTTTAGACA
AAAAAGGTTTCAATAAAAGATTGCTGTCTTGTCATATAAATGTTGTCCACTTCACTTTTTCACA
GGCCTAGAACAGTTAAAGGGAACTTTTACGTGGGCTATCACAAAGTACGAACTGGGCCAAAAAT
TTTAGTTCATACTTTAGTGAATTAGAGGATTTGGCTGCTTTAGGTACATTGATATTCATTTCTT
CTACTTCCCTTAATGTTTCTTAATCTTCTTGTAAAAGCTAATGTGAACAGTAGGGAAACAAGGG
CCCAAATGCATAAGTTTCTTTGCACTTTTGCACCATTCCACCTACTTAATACAAATAAACAGTT
GAAAAGC

hide sequence

Protein Sequences


Protein RefSeqs	XP_005394986	(Get FASTA)	NCBI Sequence Viewer
Ensembl Protein	ENSCLAP00000020133
	ENSCLAP00000020133.1

RefSeq Acc Id:

XP_005394986 ⟸ XM_005394929

- UniProtKB:

A0A8C2VV58 (UniProtKB/TrEMBL)

- Sequence:

show sequence

MSYGPLDMYRNPGPSGPQLRDFNSIIQTCSGNIQRISQATAQIKNLMSQLGTKQDSSKLQENLQ
QLQHSTNQLAKETNELLKELGSLPLPLSTSEQRQQKLQKERLMSDFSAALNNFQAVQRRVSEKE
KESIARARAGSRLSAEERQREEQLVSFDSHEEWNQMQSQEDEAAVTEQDLELIKERETAIRQLE
ADILDVNQIFKDLAMMIHDQGDLIDSIEANVESSEVHVERGADQLQRAAYYQKKSRKKMCILML
VLSVMIAVLGLVIWLVSK

hide sequence

Ensembl Acc Id:

ENSCLAP00000020133 ⟸ ENSCLAT00000020328

Protein Domains

t-SNARE coiled-coil homology

Additional Information

External Database Links

Database	Acc Id	Source(s)
Ensembl Genes	ENSCLAG00000013795	Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript	ENSCLAT00000020328	ENTREZGENE
	ENSCLAT00000020328.1	UniProtKB/TrEMBL
Gene3D-CATH	1.20.5.110	UniProtKB/TrEMBL
	1.20.58.70	UniProtKB/TrEMBL
InterPro	SNARE	UniProtKB/TrEMBL
	Syntaxin	UniProtKB/TrEMBL
	Syntaxin/epimorphin_CS	UniProtKB/TrEMBL
	Syntaxin_N	UniProtKB/TrEMBL
	T_SNARE_dom	UniProtKB/TrEMBL
NCBI Gene	Stx12	ENTREZGENE
PANTHER	PTHR19957	UniProtKB/TrEMBL
	SYNTAXIN-12	UniProtKB/TrEMBL
Pfam	SNARE	UniProtKB/TrEMBL
	Syntaxin_2	UniProtKB/TrEMBL
PROSITE	SYNTAXIN	UniProtKB/TrEMBL
	T_SNARE	UniProtKB/TrEMBL
SMART	SynN	UniProtKB/TrEMBL
	t_SNARE	UniProtKB/TrEMBL
Superfamily-SCOP	SSF47661	UniProtKB/TrEMBL
UniProt	A0A8C2VV58	ENTREZGENE, UniProtKB/TrEMBL

Gene Annotator (Functional Annotation) unavailable	Gene Annotator (Annotation Distribution) unavailable	Variant Visualizer (Genomic Variants) unavailble Variant Visualizer (Genomic Variants) unavailable
Gene Annotator (Functional Annotation)	Gene Annotator (Annotation Distribution)	Variant Visualizer (Genomic Variants)

InterViewer (Protein-Protein Interactions) unavailable	Gviewer (Genome Viewer) unavailable	Variant Visualizer (Damaging Variants) unavailble Variant Visualizer (Damaging Variants) unavailable
InterViewer (Protein-Protein Interactions)	GViewer (Genome Viewer)	Variant Visualizer (Damaging Variants)

Gene Annotator (Annotation Comparison) unavailable	OLGA (Gene List Generator) unavailable
Gene Annotator (Annotation Comparison)	OLGA (Gene List Generator)	Excel (Download)

MOET (Multi-Ontology Enrichement) unavailable	GOLF (Gene-Ortholog Location Finder) unavailable
MOET (Multi-Ontology Enrichement)	GOLF (Gene-Ortholog Location Finder)

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