Sytl4 (synaptotagmin-like 4) - Rat Genome Database

Name: Sytl4
Creator: Rat Genome Database
License: Creative Commons CC BY 4.0
Keywords: Rat Gene RGD Genome

Gene: Sytl4 (synaptotagmin-like 4) Rattus norvegicus

Analyze

Symbol:

Sytl4

Name:

synaptotagmin-like 4

RGD ID:

620204

Description:

Predicted to enable neurexin family protein binding activity and phospholipid binding activity. Predicted to be involved in several processes, including plasma membrane repair; positive regulation of secretion by cell; and regulation of plasma membrane repair. Predicted to act upstream of or within negative regulation of insulin secretion. Located in apical plasma membrane. Orthologous to human SYTL4 (synaptotagmin like 4); INTERACTS WITH 2,3,7,8-tetrachlorodibenzodioxine; 6-propyl-2-thiouracil; ammonium chloride.

Type:

protein-coding

RefSeq Status:

VALIDATED

Previously known as:

exophilin-2; granuphilin b; synaptotagmin-like 4 (granuphilin-a); synaptotagmin-like protein 4

RGD Orthologs

Alliance Orthologs

More Info

more info ...

More Info

Species	Gene symbol and name	Data Source	Assertion derived from	less info ...
Orthologs ¹				less info ...
Homo sapiens (human):	SYTL4 (synaptotagmin like 4)	HGNC	Ensembl, HomoloGene, Inparanoid, NCBI, OMA, OrthoDB, OrthoMCL, Panther, Treefam
Mus musculus (house mouse):	Sytl4 (synaptotagmin-like 4)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Chinchilla lanigera (long-tailed chinchilla):	Sytl4 (synaptotagmin like 4)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Pan paniscus (bonobo/pygmy chimpanzee):	SYTL4 (synaptotagmin like 4)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Canis lupus familiaris (dog):	SYTL4 (synaptotagmin like 4)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Ictidomys tridecemlineatus (thirteen-lined ground squirrel):	Sytl4 (synaptotagmin like 4)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Sus scrofa (pig):	SYTL4 (synaptotagmin like 4)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Chlorocebus sabaeus (green monkey):	SYTL4 (synaptotagmin like 4)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Heterocephalus glaber (naked mole-rat):	Sytl4 (synaptotagmin like 4)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Alliance orthologs ³
Homo sapiens (human):	SYTL4 (synaptotagmin like 4)	Alliance	DIOPT (Ensembl Compara\|HGNC\|Hieranoid\|InParanoid\|OMA\|OrthoFinder\|OrthoInspector\|PANTHER\|PhylomeDB\|SonicParanoid)
Mus musculus (house mouse):	Sytl4 (synaptotagmin-like 4)	Alliance	DIOPT (Ensembl Compara\|Hieranoid\|InParanoid\|OMA\|OrthoFinder\|OrthoInspector\|PANTHER\|PhylomeDB\|SonicParanoid)
Danio rerio (zebrafish):	sytl4 (synaptotagmin-like 4)	Alliance	DIOPT (Ensembl Compara\|Hieranoid\|InParanoid\|OMA\|OrthoFinder\|OrthoInspector\|PANTHER\|PhylomeDB\|SonicParanoid)
Drosophila melanogaster (fruit fly):	btsz	Alliance	DIOPT (OrthoFinder\|OrthoInspector\|PANTHER\|PhylomeDB)
Xenopus tropicalis (tropical clawed frog):	sytl4	Alliance	DIOPT (Ensembl Compara\|Hieranoid\|InParanoid\|OMA\|OrthoFinder\|OrthoInspector\|PANTHER\|PhylomeDB\|SonicParanoid)

Latest Assembly:

mRatBN7.2 - mRatBN7.2 Assembly

Position:

Rat Assembly	Chr	Position (strand)	Source	Genome Browsers
Rat Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCr8	X	101,428,785 - 101,479,207 (-)	NCBI		GRCr8
mRatBN7.2	X	97,135,496 - 97,185,867 (-)	NCBI	mRatBN7.2	mRatBN7.2
mRatBN7.2 Ensembl	X	97,135,500 - 97,185,854 (-)	Ensembl		mRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx	X	98,811,171 - 98,836,894 (-)	NCBI	Rnor_SHR	UTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0	X	102,320,957 - 102,346,675 (-)	NCBI	Rnor_SHRSP	UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0	X	99,824,353 - 99,850,072 (-)	NCBI	Rnor_WKY	UTH_Rnor_WKY_Bbb_1.0
Rnor_6.0	X	104,763,961 - 104,814,152 (-)	NCBI	Rnor6.0	Rnor_6.0	rn6	Rnor6.0
Rnor_6.0 Ensembl	X	104,765,294 - 104,814,145 (-)	Ensembl	Rnor6.0		rn6	Rnor6.0
Rnor_5.0	X	104,598,207 - 104,648,029 (-)	NCBI	Rnor5.0	Rnor_5.0	rn5	Rnor5.0
RGSC_v3.4	X	121,473,414 - 121,499,134 (-)	NCBI	RGSC3.4	RGSC_v3.4	rn4	RGSC3.4
RGSC_v3.1	X	121,546,846 - 121,572,567 (-)	NCBI
Celera	X	98,183,387 - 98,209,107 (-)	NCBI		Celera
Cytogenetic Map	X	q32	NCBI

JBrowse:

View Region in Genome Browser (JBrowse)

Model

Annotation Click to see Annotation Detail View

Disease Annotations Click to see Annotation Detail View

autistic disorder (ISO)

developmental and epileptic encephalopathy 9 (ISO)

isolated growth hormone deficiency type III (ISO)

ROLANDIC EPILEPSY, INTELLECTUAL DISABILITY, AND SPEECH DYSPRAXIA, X-LINKED (ISO)

syndromic X-linked intellectual disability Lubs type (ISO)

Gene-Chemical Interaction Annotations Click to see Annotation Detail View

(-)-epigallocatechin 3-gallate (ISO)

1,2-dimethylhydrazine (ISO)

17alpha-ethynylestradiol (ISO)

17beta-estradiol (ISO)

2,3,7,8-tetrachlorodibenzodioxine (EXP,ISO)

4-hydroxyphenyl retinamide (ISO)

6-propyl-2-thiouracil (EXP)

acrolein (ISO)

aflatoxin B1 (ISO)

alpha-pinene (ISO)

ammonium chloride (EXP)

aristolochic acid A (ISO)

Aroclor 1254 (ISO)

arsane (ISO)

arsenic atom (ISO)

arsenite(3-) (ISO)

benzo[a]pyrene (ISO)

bis(2-ethylhexyl) phthalate (ISO)

bisphenol A (EXP,ISO)

carbon nanotube (ISO)

CGP 52608 (ISO)

chromium(6+) (ISO)

copper(II) sulfate (ISO)

coumestrol (ISO)

cyclosporin A (ISO)

dorsomorphin (ISO)

endosulfan (EXP)

Enterolactone (ISO)

FR900359 (ISO)

gentamycin (EXP)

linsidomine (EXP)

manganese(II) chloride (EXP)

methylmercury chloride (ISO)

N-nitrosodiethylamine (ISO)

ozone (ISO)

panobinostat (ISO)

paracetamol (EXP,ISO)

perfluorohexanesulfonic acid (ISO)

pirinixic acid (ISO)

potassium chromate (ISO)

progesterone (ISO)

quercetin (ISO)

resveratrol (ISO)

rotenone (EXP)

SB 431542 (ISO)

silicon dioxide (ISO)

sodium arsenate (ISO)

sodium arsenite (ISO)

succimer (ISO)

sunitinib (ISO)

thimerosal (ISO)

tributylstannane (EXP)

trichloroethene (EXP)

trichostatin A (ISO)

triptonide (ISO)

tris(2-butoxyethyl) phosphate (ISO)

valproic acid (ISO)

vorinostat (ISO)

Gene Ontology Annotations Click to see Annotation Detail View

Biological Process

exocytosis (IBA,IEA,ISO,ISS)

insulin secretion (IEA,ISO)

intracellular protein transport (IEA)

lysosome localization (IEA,ISO)

multivesicular body sorting pathway (IEA,ISO)

negative regulation of insulin secretion (IEA,ISO)

plasma membrane repair (IEA,ISO)

positive regulation of exocytosis (IEA,ISO)

positive regulation of protein secretion (IEA,ISO)

regulation of plasma membrane repair (IEA,ISO)

Cellular Component

apical plasma membrane (IDA)

endosome (IEA,ISO)

exocytic vesicle (IBA)

plasma membrane (IBA,IEA,ISO,ISS)

secretory granule (IEA,ISO)

transport vesicle membrane (IEA)

Molecular Function

metal ion binding (IEA)

neurexin family protein binding (IBA,IEA,ISO,ISS)

phospholipid binding (IEA,ISO,ISS)

protein binding (IPI,ISO)

small GTPase binding (IEA)

References

References - curated

#	Reference Title	Reference Citation
1.	Pancreatic beta-cell protein granuphilin binds Rab3 and Munc-18 and controls exocytosis.	Coppola T, etal., Mol Biol Cell 2002 Jun;13(6):1906-15.
2.	Slp4-a/granuphilin-a regulates dense-core vesicle exocytosis in PC12 cells.	Fukuda M, etal., J Biol Chem 2002 Oct 18;277(42):39673-8.
3.	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.
4.	The small GTPase Rab27B regulates amylase release from rat parotid acinar cells.	Imai A, etal., J Cell Sci. 2004 Apr 15;117(Pt 10):1945-53. Epub 2004 Mar 23.
5.	Rat ISS GO annotations from MGI mouse gene data--August 2006	MGD data from the GO Consortium
6.	Electronic Transfer of LocusLink and RefSeq Data	NCBI rat LocusLink and RefSeq merged data July 26, 2002
7.	Data Import for Chemical-Gene Interactions	RGD automated import pipeline for gene-chemical interactions

Additional References at PubMed

PMID:2732579	PMID:10497219	PMID:11243866	PMID:12590134	PMID:16186111	PMID:16890542	PMID:18573236	PMID:19082571	PMID:19966785	PMID:22206666	PMID:25002582	PMID:27325790

Genomics

Comparative Map Data

Sytl4
(Rattus norvegicus - Norway rat)

Rat Assembly	Chr	Position (strand)	Source	Genome Browsers
Rat Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCr8	X	101,428,785 - 101,479,207 (-)	NCBI		GRCr8
mRatBN7.2	X	97,135,496 - 97,185,867 (-)	NCBI	mRatBN7.2	mRatBN7.2
mRatBN7.2 Ensembl	X	97,135,500 - 97,185,854 (-)	Ensembl		mRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx	X	98,811,171 - 98,836,894 (-)	NCBI	Rnor_SHR	UTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0	X	102,320,957 - 102,346,675 (-)	NCBI	Rnor_SHRSP	UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0	X	99,824,353 - 99,850,072 (-)	NCBI	Rnor_WKY	UTH_Rnor_WKY_Bbb_1.0
Rnor_6.0	X	104,763,961 - 104,814,152 (-)	NCBI	Rnor6.0	Rnor_6.0	rn6	Rnor6.0
Rnor_6.0 Ensembl	X	104,765,294 - 104,814,145 (-)	Ensembl	Rnor6.0		rn6	Rnor6.0
Rnor_5.0	X	104,598,207 - 104,648,029 (-)	NCBI	Rnor5.0	Rnor_5.0	rn5	Rnor5.0
RGSC_v3.4	X	121,473,414 - 121,499,134 (-)	NCBI	RGSC3.4	RGSC_v3.4	rn4	RGSC3.4
RGSC_v3.1	X	121,546,846 - 121,572,567 (-)	NCBI
Celera	X	98,183,387 - 98,209,107 (-)	NCBI		Celera
Cytogenetic Map	X	q32	NCBI

SYTL4
(Homo sapiens - human)

Human Assembly	Chr	Position (strand)	Source	Genome Browsers
Human Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCh38	X	100,674,491 - 100,732,121 (-)	NCBI	GRCh38	GRCh38	hg38	GRCh38
GRCh38.p14 Ensembl	X	100,671,783 - 100,732,123 (-)	Ensembl	GRCh38		hg38	GRCh38
GRCh37	X	99,929,488 - 99,987,108 (-)	NCBI	GRCh37	GRCh37	hg19	GRCh37
Build 36	X	99,816,144 - 99,873,154 (-)	NCBI	NCBI36	Build 36	hg18	NCBI36
Build 34	X	99,735,633 - 99,792,643	NCBI
Celera	X	100,448,228 - 100,505,895 (-)	NCBI		Celera
Cytogenetic Map	X	q22.1	NCBI
HuRef	X	89,729,520 - 89,785,468 (-)	NCBI		HuRef
CHM1_1	X	99,822,386 - 99,880,040 (-)	NCBI		CHM1_1
T2T-CHM13v2.0	X	99,116,950 - 99,174,573 (-)	NCBI		T2T-CHM13v2.0

Sytl4
(Mus musculus - house mouse)

Mouse Assembly	Chr	Position (strand)	Source	Genome Browsers
Mouse Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCm39	X	132,837,134 - 132,882,569 (-)	NCBI	GRCm39	GRCm39	mm39
GRCm39 Ensembl	X	132,837,134 - 132,882,561 (-)	Ensembl		GRCm39 Ensembl
GRCm38	X	133,936,385 - 133,981,821 (-)	NCBI	GRCm38	GRCm38	mm10	GRCm38
GRCm38.p6 Ensembl	X	133,936,385 - 133,981,812 (-)	Ensembl	GRCm38		mm10	GRCm38
MGSCv37	X	130,470,924 - 130,516,322 (-)	NCBI	GRCm37	MGSCv37	mm9	NCBIm37
MGSCv36	X	129,282,735 - 129,328,133 (-)	NCBI		MGSCv36	mm8
Celera	X	116,812,358 - 116,857,700 (-)	NCBI		Celera
Cytogenetic Map	X	E3	NCBI
cM Map	X	55.47	NCBI

Sytl4
(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_004955503	6,821,236 - 6,899,983 (-)	Ensembl	ChiLan1.0
ChiLan1.0	NW_004955503	6,821,263 - 6,899,983 (-)	NCBI	ChiLan1.0	ChiLan1.0

SYTL4
(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	X	100,279,112 - 100,338,151 (-)	NCBI		NHGRI_mPanPan1-v2
NHGRI_mPanPan1	X	100,285,847 - 100,341,747 (-)	NCBI		NHGRI_mPanPan1
Mhudiblu_PPA_v0	X	89,885,478 - 89,941,381 (-)	NCBI	Mhudiblu_PPA_v0	Mhudiblu_PPA_v0	panPan3
PanPan1.1	X	100,024,434 - 100,051,663 (-)	NCBI	panpan1.1	PanPan1.1	panPan2
PanPan1.1 Ensembl	X	100,024,434 - 100,051,663 (-)	Ensembl	panpan1.1		panPan2

SYTL4
(Canis lupus familiaris - dog)

Dog Assembly	Chr	Position (strand)	Source	Genome Browsers
Dog Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
CanFam3.1	X	74,537,937 - 74,617,580 (-)	NCBI	CanFam3.1	CanFam3.1	canFam3	CanFam3.1
CanFam3.1 Ensembl	X	74,539,183 - 74,565,753 (-)	Ensembl	CanFam3.1		canFam3	CanFam3.1
ROS_Cfam_1.0	X	75,947,618 - 76,027,046 (-)	NCBI		ROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl	X	75,946,000 - 76,027,014 (-)	Ensembl		ROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.1	X	73,510,069 - 73,589,479 (-)	NCBI		UMICH_Zoey_3.1
UNSW_CanFamBas_1.0	X	75,180,356 - 75,259,782 (-)	NCBI		UNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0	X	74,941,410 - 75,020,845 (-)	NCBI		UU_Cfam_GSD_1.0

Sytl4
(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	X	63,607,383 - 63,670,296 (+)	NCBI		HiC_Itri_2
SpeTri2.0 Ensembl	NW_004936584	5,884,193 - 5,917,300 (-)	Ensembl	SpeTri2.0	SpeTri2.0 Ensembl
SpeTri2.0	NW_004936584	5,882,428 - 5,945,514 (-)	NCBI	SpeTri2.0	SpeTri2.0		SpeTri2.0

SYTL4
(Sus scrofa - pig)

Pig Assembly	Chr	Position (strand)	Source	Genome Browsers
Pig Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
Sscrofa11.1 Ensembl	X	82,367,549 - 82,437,401 (-)	Ensembl	Sscrofa11.1		susScr11	Sscrofa11.1
Sscrofa11.1	X	82,367,546 - 82,437,439 (-)	NCBI	Sscrofa11.1	Sscrofa11.1	susScr11	Sscrofa11.1
Sscrofa10.2	X	90,208,955 - 90,310,119 (-)	NCBI	Sscrofa10.2	Sscrofa10.2	susScr3

SYTL4
(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	X	88,985,495 - 89,041,256 (-)	NCBI	ChlSab1.1	ChlSab1.1	chlSab2
ChlSab1.1 Ensembl	X	88,987,016 - 89,041,194 (-)	Ensembl	ChlSab1.1	ChlSab1.1 Ensembl	chlSab2
Vero_WHO_p1.0	NW_023666065	13,915,106 - 13,971,164 (-)	NCBI	Vero_WHO_p1.0	Vero_WHO_p1.0

Sytl4
(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_004624902	1,876,516 - 1,942,265 (+)	Ensembl	HetGla_female_1.0	HetGla_female_1.0 Ensembl	hetGla2
HetGla 1.0	NW_004624902	1,876,608 - 1,945,728 (+)	NCBI	HetGla_female_1.0	HetGla 1.0	hetGla2

Variants

Variants in Sytl4
197 total Variants

miRNA Target Status

Predicted Target Of

	Summary Value
Count of predictions:	158
Count of miRNA genes:	123
Interacting mature miRNAs:	138
Transcripts:	ENSRNOT00000004909, ENSRNOT00000004921
Prediction methods:	Microtar, Miranda, Pita, 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.

RGD ID	Symbol	Name	LOD	P Value	Trait	Sub Trait	Chr	Start	Stop	Species
61430	Cia18	Collagen induced arthritis QTL 18	3.1		joint integrity trait (VT:0010548)	joint inflammation composite score (CMO:0000919)	X	14843113	120568734	Rat
1598837	Memor13	Memory QTL 13	3.2		exploratory behavior trait (VT:0010471)	difference between time of physical contact/close proximity of test subject and social stimulus during sample phase and test phase (CMO:0002678)	X	41052407	146860749	Rat
738035	Stresp1	Stress response QTL 1	4.96	0.000011	stress-related behavior trait (VT:0010451)	defensive burying - coping	X	41304447	112935181	Rat
61431	Cia19	Collagen induced arthritis QTL 19	4.4		joint integrity trait (VT:0010548)	joint inflammation composite score (CMO:0000919)	X	65612192	120568734	Rat
724551	Glom1	Glomerulus QTL 1	2.8	0.0004	kidney glomerulus morphology trait (VT:0005325)	count of superficial glomeruli not directly contacting the kidney surface (CMO:0001002)	X	75294106	120294106	Rat
1598872	Memor14	Memory QTL 14	4.5		exploratory behavior trait (VT:0010471)	difference between time of physical contact/close proximity of test subject and social stimulus during sample phase and test phase (CMO:0002678)	X	93956491	138956491	Rat

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		8		7						11
Low	2	43	49	41	12	41	8	10	72	35	25	11	8
Below cutoff								1	2		5

View RNA-SEQ Expression Data

Sequence

Nucleotide Sequences


RefSeq Transcripts	NM_080410	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	XM_008773387	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	XM_039099429	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	XM_039099431	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	XM_063279762	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	XM_063279763	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
GenBank Nucleotide	AF419341	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	AF419342	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	CH473969	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	JAXUCZ010000021	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles

RefSeq Acc Id:

ENSRNOT00000004909 ⟹ ENSRNOP00000004909

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
mRatBN7.2 Ensembl	X	97,146,164 - 97,185,854 (-)	Ensembl
Rnor_6.0 Ensembl	X	104,765,294 - 104,814,145 (-)	Ensembl

RefSeq Acc Id:

ENSRNOT00000004921 ⟹ ENSRNOP00000004921

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
mRatBN7.2 Ensembl	X	97,137,031 - 97,185,854 (-)	Ensembl
Rnor_6.0 Ensembl	X	104,765,492 - 104,791,210 (-)	Ensembl

RefSeq Acc Id:

ENSRNOT00000113853 ⟹ ENSRNOP00000078420

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
mRatBN7.2 Ensembl	X	97,135,500 - 97,185,854 (-)	Ensembl

RefSeq Acc Id:

NM_080410 ⟹ NP_536335

RefSeq Status:

VALIDATED

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
GRCr8	X	101,428,785 - 101,479,151 (-)	NCBI
mRatBN7.2	X	97,135,496 - 97,185,866 (-)	NCBI
Rnor_6.0	X	104,765,492 - 104,791,210 (-)	NCBI
Rnor_5.0	X	104,598,207 - 104,648,029 (-)	NCBI
RGSC_v3.4	X	121,473,414 - 121,499,134 (-)	RGD
Celera	X	98,183,387 - 98,209,107 (-)	RGD

Sequence:

show sequence

ATGTCGGAGATACTAGACCTCTCTTTTCTGTCTGAGATGGAAAGAGATTTGATTCTCAGTGTTC
TGCAGAGAGATGAAGAGCTCAGAAAAGCAGATGAGAAAAGGATTCGGCGACTGAAGAACGAGCT
CCTGGAGATCAAACGAAAAGGTGCCAAAAGGGGCAGCCAACACTACAGTGATCGAACCTGTGCC
AGGTGCCAGGAAGGCCTGGGCCGTTTAATTTCCAAAAGCAACACTTGTGTGGGTTGTAATCATT
TAGTGTGCCGAGAATGCCGAGTTCTGGAGAGCAATGGCTCCTGGAGGTGCAAGGTGTGCTCGAA
GGAAATAGAGCTGAAGAAAGCAACTGGAGATTGGTTTTATGACCAGAAAGTAAATCGCTTTGCT
TACAGAACAGGCAGCGACATCATCAGGATGTCCCTGCGCCGTAAGCCTGCAGTGAATAAAAGAG
AGACAGTGGGGCAGTCCCTCCTTCAGCAGACCCAGATGGGTGATATCTGGCCGGGAAGAAGGAT
CATTCAGGAACAGCAGAAGGAACAAAGTGTGCTGTTTGAAGTGCCAAAGCTGAAGAGTGGAAAG
AGCGCACTGGAGGCTGAGAGCGAGAGTCTGGATAGCTACACCGCTGACTCGGACAGCACCTCCA
GGAGAGATTCTCTGGATAAATCTGGACTCTTCCCAGAATGGAAGAAGATGTCTGCTCCCAAATC
TCAAGTTGAAAAGGAAATTGCACCAGGGAACCAGAATGCAGTGTGTGGTGATGAGGGTGACATG
ATATTTAAGAAGAACACTAGGAAAGTCCTGAGGCCTTCAGAATACACTAAGTCTGTGATAGACC
TTCGTCCAGAAGATGTGGCCCAAGAAAGTGGCATCTTGGGAGATAGAAGCAAATCTGTACCAGG
CCTCAGTGTGGATATGGAAGACGAGGAGGAGGAGGAAGAGGACATTGACCACCTGGTGAAGTTG
CATCGCCAGAAACTGGCCAGAGGCAGCATGCAGAGCGGCTCCTCCATGAGTACCATTGGCAGCA
TGATGAGCCTCTATAGCGAAGCTGGTGATTTTGGGAACGTCTCTGTGACTGGCAAAATTGCCTT
TTCACTGAAGTTTGAGCAGAAAACACAGACTCTGGTCATCCATGTCAAGGAGTGCCACCAGTTG
GCTTATGCTGATGAAGCCAAGAAGCGTTCTAACCCATACGTGAAGACTTATCTTCTGCCTGACA
AGTCCCGCCAAGGAAAAAGAAAAACCAGCATCAAGCGGGACACCATCAATCCACTATATGATGA
GACCTTTCGGTATGAGATTTCGGAGTCTCTTCTGGCTCAGAGGACCTTGCAGTTTTCCGTTTGG
CATCATGGTCGTTTCGGTAGAAACACCTTCCTTGGAGAGGCGGAGGTCCACATGGACTCTTGGA
AGCTGGATAAGAAGCTGGATCATTGCCTCCCTTTACATGGAAAGATCAGTACTGAGTCCTCGCC
TGGTTTGCCAGCACACAAAGGCGAGTTGGTGGTTTCATTGAAATACATCCCAGCCTCCAAACTC
CCTGTTGGAGGTGACCGGAAAAAGAGTAAAGGTGGGGAAGGGGGAGAACTCCAGGTGTGGATCA
AAGAAGCCAAGAACCTGACGGCTGCCAAATCAGGAGGGACATCAGACAGCTTTGTCAAGGGATA
CCTCCTTCCCATGAGGAACAAGGCCAGTAAGCGTAAAACTCCTGTGATGAAGAAGACCTTGAAT
CCCCACTACAACCACACATTTGTCTACAATGGTGTGAGGCTGGAAGATCTACAACACATGTGCC
TGGAACTGACTGTATGGGACCGGGAGCCCCTGGCCAGCAATGACTTCCTGGGAGGGGTCAGACT
GGGTGTTGGCACTGGGATCAGTAGTGGCGAAGTGGTGGACTGGATGGATTCGACTGGTGAAGAA
GTAAGCCTGTGGCAGAAGATGCGACAGTACCCAGGGTCTTGGGCAGAAGGAACTCTGCAGCTAC
GTTCTTCAATGGTCAAGCAGAAGCTGGGTGTATGA

hide sequence

RefSeq Acc Id:

XM_008773387 ⟹ XP_008771609

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
GRCr8	X	101,428,791 - 101,479,207 (-)	NCBI
mRatBN7.2	X	97,135,500 - 97,185,867 (-)	NCBI
Rnor_6.0	X	104,765,486 - 104,814,151 (-)	NCBI

Sequence:

show sequence

GTTGCAGCTTTTTCCGCCTCCTGGGAGGGTTGAGTAGGGCCGGCCGCCCGGGTTGCTGGTCTCA
GTCTTTTTGGAACTAGAGACCCTTCCAACCATTCAGCACCCGGACCTTTGGTCACCTAGTAGCA
CCTGTTGCAGGTGACAGACACCTCTGGTCACTCTTCTTGCCCAGGTTGCTTTGAAGAGAGAGGA
GGAGACTCAATACATCATGTCGGAGATACTAGACCTCTCTTTTCTGTCTGAGATGGAAAGAGAT
TTGATTCTCAGTGTTCTGCAGAGAGATGAAGAGCTCAGAAAAGCAGATGAGAAAAGGATTCGGC
GACTGAAGAACGAGCTCCTGGAGATCAAACGAAAAGGTGCCAAAAGGGGCAGCCAACACTACAG
TGATCGAACCTGTGCCAGGTGCCAGGAAGGCCTGGGCCGTTTAATTTCCAAAAGCAACACTTGT
GTGGGTTGTAATCATTTAGTGTGCCGAGAATGCCGAGTTCTGGAGAGCAATGGCTCCTGGAGGT
GCAAGGTGTGCTCGAAGGAAATAGAGCTGAAGAAAGCAACTGGAGATTGGTTTTATGACCAGAA
AGTAAATCGCTTTGCTTACAGAACAGGCAGCGACATCATCAGGATGTCCCTGCGCCGTAAGCCT
GCAGTGAATAAAAGAGAGACAGTGGGGCAGTCCCTCCTTCAGCAGACCCAGATGGGTGATATCT
GGCCGGGAAGAAGGATCATTCAGGAACAGCAGAAGGAACAAAGTGTGCTGTTTGAAGTGCCAAA
GCTGAAGAGTGGAAAGAGCGCACTGGAGGCTGAGAGCGAGAGTCTGGATAGCTACACCGCTGAC
TCGGACAGCACCTCCAGGAGAGATTCTCTGGATAAATCTGGACTCTTCCCAGAATGGAAGAAGA
TGTCTGCTCCCAAATCTCAAGTTGAAAAGGAAATTGCACCAGGGAACCAGAATGCAGTGTGTGG
TGATGAGGGTGACATGATATTTAAGAAGAACACTAGGAAAGTCCTGAGGCCTTCAGAATACACT
AAGTCTGTGATAGACCTTCGTCCAGAAGATGTGGCCCAAGAAAGTGGCATCTTGGGAGATAGAA
GCAAATCTGTACCAGGCCTCAGTGTGGATATGGAAGAGGAGGAGGAGGAGGAAGAGGACATTGA
CCACCTGGTGAAGTTGCATCGCCAGAAACTGGCCAGAGGCAGCATGCAGAGCGGCTCCTCCATG
AGTACCATTGGCAGCATGATGAGCCTCTATAGCGAAGCTGGTGATTTTGGGAACGTCTCTGTGA
CTGGCAAAATTGCCTTTTCACTGAAGTTTGAGCAGAAAACACAGACTCTGGTCATCCATGTCAA
GGAGTGCCACCAGTTGGCTTATGCTGATGAAGCCAAGAAGCGTTCTAACCCATACGTGAAGACT
TATCTTCTGCCTGACAAGTCCCGCCAAGGAAAAAGAAAAACCAGCATCAAGCGGGACACCATCA
ATCCACTATATGATGAGACCTTTCGGTATGAGATTTCGGAGTCTCTTCTGGCTCAGAGGACCTT
GCAGTTTTCCGTTTGGCATCATGGTCGTTTCGGTAGAAACACCTTCCTTGGAGAGGCGGAGGTC
CACATGGACTCTTGGAAGCTGGATAAGAAGCTGGATCATTGCCTCCCTTTACATGGAAAGGGAT
CAGTAGTGGCGAAGTGGTGGACTGGATGGATTCGACTGGTGAAGAAGTAAGCCTGTGGCAGAAG
ATGCGACAGTACCCAGGGTCTTGGGCAGAAGGAACTCTGCAGCTACGTTCTTCAATGGTCAAGC
AGAAGCTGGGTGTCTGAGTTCCT

hide sequence

RefSeq Acc Id:

XM_039099429 ⟹ XP_038955357

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
GRCr8	X	101,428,791 - 101,479,109 (-)	NCBI
mRatBN7.2	X	97,135,500 - 97,185,867 (-)	NCBI

RefSeq Acc Id:

XM_039099431 ⟹ XP_038955359

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
GRCr8	X	101,428,791 - 101,479,151 (-)	NCBI
mRatBN7.2	X	97,135,500 - 97,185,865 (-)	NCBI

RefSeq Acc Id:

XM_063279762 ⟹ XP_063135832

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
GRCr8	X	101,428,791 - 101,479,109 (-)	NCBI

RefSeq Acc Id:

XM_063279763 ⟹ XP_063135833

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
GRCr8	X	101,428,791 - 101,479,151 (-)	NCBI

Protein Sequences


Protein RefSeqs	NP_536335	(Get FASTA)	NCBI Sequence Viewer
	XP_008771609	(Get FASTA)	NCBI Sequence Viewer
	XP_038955357	(Get FASTA)	NCBI Sequence Viewer
	XP_038955359	(Get FASTA)	NCBI Sequence Viewer
	XP_063135832	(Get FASTA)	NCBI Sequence Viewer
	XP_063135833	(Get FASTA)	NCBI Sequence Viewer
GenBank Protein	AAL38513	(Get FASTA)	NCBI Sequence Viewer
	AAL38514	(Get FASTA)	NCBI Sequence Viewer
	EDM07039	(Get FASTA)	NCBI Sequence Viewer
	EDM07040	(Get FASTA)	NCBI Sequence Viewer
Ensembl Protein	ENSRNOP00000004909.4
	ENSRNOP00000004921
	ENSRNOP00000004921.4
	ENSRNOP00000078420
	ENSRNOP00000078420.1
GenBank Protein	Q8VHQ7	(Get FASTA)	NCBI Sequence Viewer

RefSeq Acc Id:

NP_536335 ⟸ NM_080410

- UniProtKB:

A0A8I5ZMC6 (UniProtKB/TrEMBL), A6IVE0 (UniProtKB/TrEMBL)

- Sequence:

show sequence

MSEILDLSFLSEMERDLILSVLQRDEELRKADEKRIRRLKNELLEIKRKGAKRGSQHYSDRTCA
RCQEGLGRLISKSNTCVGCNHLVCRECRVLESNGSWRCKVCSKEIELKKATGDWFYDQKVNRFA
YRTGSDIIRMSLRRKPAVNKRETVGQSLLQQTQMGDIWPGRRIIQEQQKEQSVLFEVPKLKSGK
SALEAESESLDSYTADSDSTSRRDSLDKSGLFPEWKKMSAPKSQVEKEIAPGNQNAVCGDEGDM
IFKKNTRKVLRPSEYTKSVIDLRPEDVAQESGILGDRSKSVPGLSVDMEDEEEEEEDIDHLVKL
HRQKLARGSMQSGSSMSTIGSMMSLYSEAGDFGNVSVTGKIAFSLKFEQKTQTLVIHVKECHQL
AYADEAKKRSNPYVKTYLLPDKSRQGKRKTSIKRDTINPLYDETFRYEISESLLAQRTLQFSVW
HHGRFGRNTFLGEAEVHMDSWKLDKKLDHCLPLHGKISTESSPGLPAHKGELVVSLKYIPASKL
PVGGDRKKSKGGEGGELQVWIKEAKNLTAAKSGGTSDSFVKGYLLPMRNKASKRKTPVMKKTLN
PHYNHTFVYNGVRLEDLQHMCLELTVWDREPLASNDFLGGVRLGVGTGISSGEVVDWMDSTGEE
VSLWQKMRQYPGSWAEGTLQLRSSMVKQKLGV

hide sequence

RefSeq Acc Id:	XP_008771609 ⟸ XM_008773387
- Peptide Label:	isoform X2
- UniProtKB:	D3ZTZ2 (UniProtKB/TrEMBL), A6IVE1 (UniProtKB/TrEMBL), G3V6G6 (UniProtKB/TrEMBL)
- Sequence:	show sequence MSEILDLSFLSEMERDLILSVLQRDEELRKADEKRIRRLKNELLEIKRKGAKRGSQHYSDRTCA RCQEGLGRLISKSNTCVGCNHLVCRECRVLESNGSWRCKVCSKEIELKKATGDWFYDQKVNRFA YRTGSDIIRMSLRRKPAVNKRETVGQSLLQQTQMGDIWPGRRIIQEQQKEQSVLFEVPKLKSGK SALEAESESLDSYTADSDSTSRRDSLDKSGLFPEWKKMSAPKSQVEKEIAPGNQNAVCGDEGDM IFKKNTRKVLRPSEYTKSVIDLRPEDVAQESGILGDRSKSVPGLSVDMEEEEEEEEDIDHLVKL HRQKLARGSMQSGSSMSTIGSMMSLYSEAGDFGNVSVTGKIAFSLKFEQKTQTLVIHVKECHQL AYADEAKKRSNPYVKTYLLPDKSRQGKRKTSIKRDTINPLYDETFRYEISESLLAQRTLQFSVW HHGRFGRNTFLGEAEVHMDSWKLDKKLDHCLPLHGKGSVVAKWWTGWIRLVKK hide sequence

RefSeq Acc Id:

ENSRNOP00000004921 ⟸ ENSRNOT00000004921

RefSeq Acc Id:

ENSRNOP00000004909 ⟸ ENSRNOT00000004909

RefSeq Acc Id:	XP_038955357 ⟸ XM_039099429
- Peptide Label:	isoform X1
- UniProtKB:	Q8VHQ7 (UniProtKB/Swiss-Prot), Q8VHQ6 (UniProtKB/Swiss-Prot), A0A8I5ZMC6 (UniProtKB/TrEMBL), A6IVE0 (UniProtKB/TrEMBL)

RefSeq Acc Id:	XP_038955359 ⟸ XM_039099431
- Peptide Label:	isoform X1
- UniProtKB:	Q8VHQ7 (UniProtKB/Swiss-Prot), Q8VHQ6 (UniProtKB/Swiss-Prot), A0A8I5ZMC6 (UniProtKB/TrEMBL), A6IVE0 (UniProtKB/TrEMBL)

RefSeq Acc Id:

ENSRNOP00000078420 ⟸ ENSRNOT00000113853

RefSeq Acc Id:	XP_063135833 ⟸ XM_063279763
- Peptide Label:	isoform X2
- UniProtKB:	A6IVE1 (UniProtKB/TrEMBL), D3ZTZ2 (UniProtKB/TrEMBL)

RefSeq Acc Id:	XP_063135832 ⟸ XM_063279762
- Peptide Label:	isoform X2
- UniProtKB:	A6IVE1 (UniProtKB/TrEMBL), D3ZTZ2 (UniProtKB/TrEMBL)

Protein Domains

C2 RabBD

Protein Structures

Name	Modeler	Protein Id	AA Range	Protein Structure
AF-Q8VHQ7-F1-model_v2	AlphaFold	Q8VHQ7	1-672	view protein structure

Transcriptome

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

Additional Information

External Database Links

Database	Acc Id	Source(s)
AGR Gene	RGD:620204	AgrOrtholog
BIND	134440
	134444
	134445
	134446
BioCyc Gene	G2FUF-1697	BioCyc
Ensembl Genes	ENSRNOG00000003526	Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript	ENSRNOT00000004909.7	UniProtKB/TrEMBL
	ENSRNOT00000004921.6	UniProtKB/TrEMBL
	ENSRNOT00000113853	ENTREZGENE
	ENSRNOT00000113853.1	UniProtKB/TrEMBL
Gene3D-CATH	2.60.40.150	UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
	3.30.40.10	UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
InterPro	C2_dom	UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
	C2_domain_sf	UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
	FYVE_2	UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
	FYVE_Slp4	UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
	Rab_BD	UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
	SLP-4/5_C2A	UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
	SYTL1-5_C2B	UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
	Znf_FYVE_PHD	UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
	Znf_RING/FYVE/PHD	UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
KEGG Report	rno:140594	UniProtKB/Swiss-Prot
NCBI Gene	140594	ENTREZGENE
PANTHER	BITESIZE, ISOFORM I	UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
	PTHR45716:SF4	UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Pfam	FYVE_2	UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
	PF00168	UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PhenoGen	Sytl4	PhenoGen
PROSITE	PS50004	UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
	RABBD	UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
RatGTEx	ENSRNOG00000003526	RatGTEx
SMART	SM00239	UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Superfamily-SCOP	SSF49562	UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
	SSF57903	UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
UniProt	A0A8I5ZMC6	ENTREZGENE, UniProtKB/TrEMBL
	A6IVE0	ENTREZGENE, UniProtKB/TrEMBL
	A6IVE1	ENTREZGENE, UniProtKB/TrEMBL
	D3ZTZ2	ENTREZGENE, UniProtKB/TrEMBL
	G3V6G6	ENTREZGENE, UniProtKB/TrEMBL
	Q8VHQ6	ENTREZGENE
	Q8VHQ7	ENTREZGENE, UniProtKB/Swiss-Prot
UniProt Secondary	Q8VHQ6	UniProtKB/Swiss-Prot

Nomenclature History

Date	Current Symbol	Current Name	Previous Symbol	Previous Name	Description	Reference	Status
2005-07-08	Sytl4	synaptotagmin-like 4		synaptotagmin-like 4 (granuphilin-a)	Name updated	1299863	APPROVED
2002-08-07	Sytl4	synaptotagmin-like 4 (granuphilin-a)			Symbol and Name status set to provisional	70820	PROVISIONAL

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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Imported Disease Annotations - ClinVar