Cplx2 (complexin 2) - Rat Genome Database

Name: Cplx2
Creator: Rat Genome Database
License: Creative Commons CC BY 4.0
Keywords: Rat Gene RGD Genome

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Gene: Cplx2 (complexin 2) Rattus norvegicus

Analyze

Symbol:

Cplx2

Name:

complexin 2

RGD ID:

70945

Description:

Exhibits calcium-dependent protein binding activity and syntaxin-1 binding activity. Involved in synaptic vesicle exocytosis. Localizes to several cellular components, including dendrite; neuronal cell body; and synaptobrevin 2-SNAP-25-syntaxin-1a-complexin II complex. Orthologous to human CPLX2 (complexin 2); INTERACTS WITH 6-propyl-2-thiouracil; acrylamide; alachlor.

Type:

protein-coding

RefSeq Status:

PROVISIONAL

Also known as:

complexin II; complexin-2; CPX II; synaphin-1

RGD Orthologs

Human

Mouse

Chinchilla

Bonobo

Dog

Squirrel

Pig

Green Monkey

Naked Mole-Rat

Alliance Genes

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):	CPLX2 (complexin 2)	HGNC	EggNOG, Ensembl, HomoloGene, Inparanoid, NCBI, OMA, OrthoDB, Panther, PhylomeDB, Treefam
Mus musculus (house mouse):	Cplx2 (complexin 2)	HGNC	Treefam, EggNOG, NCBI, OMA, HomoloGene, Inparanoid, Panther, PhylomeDB, OrthoDB, Ensembl
Chinchilla lanigera (long-tailed chinchilla):	Cplx2 (complexin 2)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Pan paniscus (bonobo/pygmy chimpanzee):	CPLX2 (complexin 2)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Canis lupus familiaris (dog):	CPLX2 (complexin 2)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Ictidomys tridecemlineatus (thirteen-lined ground squirrel):	Cplx2 (complexin 2)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Sus scrofa (pig):	CPLX2 (complexin 2)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Chlorocebus sabaeus (African green monkey):	CPLX2 (complexin 2)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Heterocephalus glaber (naked mole-rat):	Cplx2 (complexin 2)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Alliance orthologs ³
Homo sapiens (human):	CPLX2 (complexin 2)	Alliance	DIOPT (Ensembl Compara\|HGNC\|Hieranoid\|InParanoid\|OMA\|OrthoFinder\|OrthoInspector\|PANTHER\|PhylomeDB\|TreeFam)
Mus musculus (house mouse):	Cplx2 (complexin 2)	Alliance	DIOPT (Ensembl Compara\|Hieranoid\|InParanoid\|OMA\|OrthoFinder\|OrthoInspector\|PANTHER\|PhylomeDB\|TreeFam)
Danio rerio (zebrafish):	cplx2 (complexin 2)	Alliance	DIOPT (Ensembl Compara\|Hieranoid\|InParanoid\|OMA\|OrthoFinder\|OrthoInspector\|PANTHER\|PhylomeDB\|TreeFam)
Drosophila melanogaster (fruit fly):	cpx	Alliance	DIOPT (Ensembl Compara\|Hieranoid\|InParanoid\|OrthoFinder\|OrthoInspector\|PANTHER\|TreeFam)
Caenorhabditis elegans (roundworm):	cpx-1	Alliance	DIOPT (Ensembl Compara\|Hieranoid\|InParanoid\|OMA\|OrthoFinder\|OrthoInspector\|PANTHER\|PhylomeDB\|TreeFam)
Caenorhabditis elegans (roundworm):	cpx-2	Alliance	DIOPT (Ensembl Compara\|OrthoFinder\|TreeFam)

Latest Assembly:

Rnor_6.0 - RGSC Genome Assembly v6.0

Position:

Rat Assembly	Chr	Position (strand)	Source	Genome Browsers
Rat Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
Rnor_6.0	17	10,756,871 - 10,828,811 (-)	NCBI	Rnor6.0	Rnor_6.0	rn6	Rnor6.0
Rnor_6.0 Ensembl	17	10,756,285 - 10,818,835 (-)	Ensembl	Rnor6.0		rn6	Rnor6.0
Rnor_5.0	17	12,880,802 - 12,952,180 (-)	NCBI	Rnor5.0	Rnor_5.0	rn5	Rnor5.0
RGSC_v3.4	17	16,314,592 - 16,322,938 (-)	NCBI	RGSC3.4		rn4	RGSC3.4
RGSC_v3.1	17	16,314,591 - 16,322,938 (-)	NCBI
Celera	17	10,295,626 - 10,303,931 (-)	NCBI		Celera
Cytogenetic Map	17	p14	NCBI

JBrowse:

View Region in Genome Browser (JBrowse)

Model

Annotation Click to see Annotation Detail View

Disease Annotations Click to see Annotation Detail View

bipolar disorder (ISO)

psychotic disorder (ISO)

schizophrenia (ISO)

Gene-Chemical Interaction Annotations Click to see Annotation Detail View

1,2-dichloroethane (ISO)

1,2-dimethylhydrazine (ISO)

2-butoxyethanol (ISO)

6-propyl-2-thiouracil (EXP)

acrylamide (EXP,ISO)

aflatoxin B1 (ISO)

alachlor (EXP)

amiodarone (ISO)

ammonium chloride (EXP)

arsane (ISO)

arsenic atom (ISO)

arsenite(3-) (ISO)

benzo[a]pyrene (ISO)

benzo[b]fluoranthene (ISO)

Benzo[ghi]perylene (ISO)

bisphenol A (EXP,ISO)

butanal (ISO)

C60 fullerene (EXP)

calcidiol (EXP)

carbon nanotube (ISO)

choline (ISO)

chrysene (ISO)

clozapine (ISO)

copper atom (ISO)

copper(0) (ISO)

copper(II) chloride (ISO)

diazinon (ISO)

dicrotophos (ISO)

endosulfan (EXP)

ethanol (ISO)

fisetin (EXP)

folic acid (ISO)

gamma-tocopherol (ISO)

indole-3-methanol (EXP)

L-methionine (ISO)

manganese(II) chloride (EXP)

methamphetamine (EXP)

methylazoxymethanol (ISO)

methylmercury chloride (EXP)

N-methyl-4-phenylpyridinium (EXP)

perfluorooctanoic acid (ISO)

phencyclidine (ISO)

propanal (ISO)

sarin (EXP)

silicon dioxide (ISO)

tetrachloromethane (EXP)

tetraphene (ISO)

tocopherol (ISO)

trimellitic anhydride (ISO)

tungsten (ISO)

urethane (ISO)

valproic acid (EXP,ISO)

vinclozolin (EXP)

Gene Ontology Annotations Click to see Annotation Detail View

Biological Process

mast cell degranulation (IEA)

positive regulation of synaptic plasticity (ISO,ISS)

regulation of neurotransmitter secretion (IBA)

regulation of synaptic vesicle fusion to presynaptic active zone membrane (ISO)

synaptic vesicle exocytosis (IBA,IDA)

vesicle docking involved in exocytosis (TAS)

Cellular Component

calyx of Held (ISO)

cytosol (IEA)

dendrite (IDA)

glutamatergic synapse (ISO)

neuronal cell body (IDA)

nucleus (IEA)

perikaryon (IEA)

postsynapse (IDA)

presynapse (IDA,ISO)

SNARE complex (IBA,IDA)

synapse (IDA)

synaptobrevin 2-SNAP-25-syntaxin-1a-complexin II complex (IDA)

terminal bouton (HDA,IBA)

Molecular Function

calcium-dependent protein binding (IPI)

protein binding (ISO)

SNARE binding (IBA,IDA)

syntaxin-1 binding (IBA,IDA)

References

References - curated


1.	Gaudet P, etal., Brief Bioinform. 2011 Sep;12(5):449-62. doi: 10.1093/bib/bbr042. Epub 2011 Aug 27.
2.	Ishizuka T, etal., Neuroscience 1999 Jan;88(1):295-306.
3.	McMahon HT, etal., Cell 1995 Oct 6;83(1):111-9.
4.	MGD Curation, June 12, 2002
5.	MGD data from the GO Consortium
6.	NCBI rat LocusLink and RefSeq merged data July 26, 2002
7.	Pabst S, etal., J Biol Chem 2002 Mar 8;277(10):7838-48.
8.	Reim K, etal., Cell 2001 Jan 12;104(1):71-81.
9.	RGD automated data pipeline
10.	RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
11.	RGD automated import pipeline for gene-chemical interactions
12.	Tokumaru H, etal., Brain Cell Biol. 2008 Dec;36(5-6):173-89. doi: 10.1007/s11068-008-9032-9. Epub 2009 Jan 9.
13.	Wilhelm BG, etal., Science. 2014 May 30;344(6187):1023-8. doi: 10.1126/science.1252884.
14.	Yamada M, etal., Neuroscience. 1999;93(1):7-18.

Additional References at PubMed

PMID:7654227	PMID:9753100	PMID:10777504	PMID:15870114	PMID:15911881	PMID:16430375	PMID:16499873	PMID:17511609	PMID:19900895	PMID:19932892	PMID:20829354	PMID:21110949
PMID:25002582	PMID:26019341

Genomics

Comparative Map Data

Cplx2
(Rattus norvegicus - Norway rat)

Rat Assembly	Chr	Position (strand)	Source	Genome Browsers
Rat Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
Rnor_6.0	17	10,756,871 - 10,828,811 (-)	NCBI	Rnor6.0	Rnor_6.0	rn6	Rnor6.0
Rnor_6.0 Ensembl	17	10,756,285 - 10,818,835 (-)	Ensembl	Rnor6.0		rn6	Rnor6.0
Rnor_5.0	17	12,880,802 - 12,952,180 (-)	NCBI	Rnor5.0	Rnor_5.0	rn5	Rnor5.0
RGSC_v3.4	17	16,314,592 - 16,322,938 (-)	NCBI	RGSC3.4		rn4	RGSC3.4
RGSC_v3.1	17	16,314,591 - 16,322,938 (-)	NCBI
Celera	17	10,295,626 - 10,303,931 (-)	NCBI		Celera
Cytogenetic Map	17	p14	NCBI

CPLX2
(Homo sapiens - human)

Human Assembly	Chr	Position (strand)	Source	Genome Browsers
Human Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCh38.p13 Ensembl	5	175,796,310 - 175,884,021 (+)	Ensembl	GRCh38		hg38	GRCh38
GRCh38	5	175,796,533 - 175,884,021 (+)	NCBI	GRCh38	GRCh38	hg38	GRCh38
GRCh37	5	175,223,542 - 175,311,024 (+)	NCBI	GRCh37	GRCh37	hg19	GRCh37
Build 36	5	175,156,216 - 175,243,629 (+)	NCBI	NCBI36		hg18	NCBI36
Build 34	5	175,156,215 - 175,243,629	NCBI
Celera	5	171,262,673 - 171,350,105 (+)	NCBI
Cytogenetic Map	5	q35.2	NCBI
HuRef	5	170,322,487 - 170,409,702 (+)	NCBI		HuRef
CHM1_1	5	174,656,299 - 174,743,770 (+)	NCBI		CHM1_1

Cplx2
(Mus musculus - house mouse)

Mouse Assembly	Chr	Position (strand)	Source	Genome Browsers
Mouse Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCm39	13	54,455,447 - 54,531,736 (+)	NCBI	GRCm39		mm39
GRCm38	13	54,301,964 - 54,383,923 (+)	NCBI	GRCm38	GRCm38	mm10	GRCm38
GRCm38.p6 Ensembl	13	54,371,349 - 54,383,917 (+)	Ensembl	GRCm38		mm10	GRCm38
MGSCv37	13	54,472,713 - 54,485,278 (+)	NCBI	GRCm37		mm9	NCBIm37
MGSCv36	13	54,380,974 - 54,393,539 (+)	NCBI			mm8
Celera	13	55,439,482 - 55,451,914 (+)	NCBI		Celera
Cytogenetic Map	13	B1	NCBI

Cplx2
(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_004955408	28,308,517 - 28,388,742 (+)	Ensembl	ChiLan1.0
ChiLan1.0	NW_004955408	28,308,807 - 28,388,650 (+)	NCBI	ChiLan1.0	ChiLan1.0

CPLX2
(Pan paniscus - bonobo/pygmy chimpanzee)

Bonobo Assembly	Chr	Position (strand)	Source	Genome Browsers
Bonobo Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
PanPan1.1	5	178,041,212 - 178,128,595 (+)	NCBI	panpan1.1	PanPan1.1	panPan2
PanPan1.1 Ensembl	5	178,115,947 - 178,128,595 (+)	Ensembl	panpan1.1		panPan2
Mhudiblu_PPA_v0	5	171,144,671 - 171,233,028 (+)	NCBI	Mhudiblu_PPA_v0		panPan3

CPLX2
(Canis lupus familiaris - dog)

Dog Assembly	Chr	Position (strand)	Source	Genome Browsers
Dog Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
CanFam3.1 Ensembl	4	37,206,082 - 37,275,954 (-)	Ensembl	CanFam3.1		canFam3	CanFam3.1
CanFam3.1	4	37,203,003 - 37,275,938 (-)	NCBI	CanFam3.1	CanFam3.1	canFam3	CanFam3.1

Cplx2
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)

Squirrel Assembly	Chr	Position (strand)	Source	Genome Browsers
Squirrel Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
SpeTri2.0	NW_004936597	276,540 - 356,822 (+)	NCBI	SpeTri2.0	SpeTri2.0		SpeTri2.0

CPLX2
(Sus scrofa - pig)

Pig Assembly	Chr	Position (strand)	Source	Genome Browsers
Pig Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
Sscrofa11.1 Ensembl	2	81,732,528 - 81,813,271 (-)	Ensembl	Sscrofa11.1		susScr11	Sscrofa11.1
Sscrofa11.1	2	81,732,527 - 81,813,189 (-)	NCBI	Sscrofa11.1	Sscrofa11.1	susScr11	Sscrofa11.1

CPLX2
(Chlorocebus sabaeus - African green monkey)

Vervet Assembly	Chr	Position (strand)	Source	Genome Browsers
Vervet Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
ChlSab1.1 Ensembl	23	78,025,798 - 78,027,094 (+)	Ensembl
ChlSab1.1	23	77,943,553 - 78,031,083 (+)	NCBI

Cplx2
(Heterocephalus glaber - naked mole-rat)

Molerat Assembly	Chr	Position (strand)	Source	Genome Browsers
Molerat Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
HetGla 1.0	NW_004624733	14,085,085 - 14,170,711 (-)	NCBI

Position Markers

BE106621

Rat Assembly	Chr	Position (strand)	Source	JBrowse
Rnor_6.0	17	10,757,746 - 10,757,902	NCBI	Rnor6.0
Rnor_5.0	17	12,883,599 - 12,883,755	UniSTS	Rnor5.0
RGSC_v3.4	17	16,314,556 - 16,314,712	UniSTS	RGSC3.4
Celera	17	10,295,590 - 10,295,746	UniSTS
Cytogenetic Map	17	p14	UniSTS
RH 3.4 Map	17	96.3	UniSTS

BF405787

Rat Assembly	Chr	Position (strand)	Source	JBrowse
Rnor_5.0	17	12,886,043 - 12,886,166	NCBI	Rnor5.0
RGSC_v3.4	17	16,317,001 - 16,317,123	UniSTS	RGSC3.4
Celera	17	10,298,034 - 10,298,156	UniSTS
Cytogenetic Map	17	p14	UniSTS
RH 3.4 Map	17	92.3	UniSTS

CPLX2_9184

Rat Assembly	Chr	Position (strand)	Source	JBrowse
Rnor_6.0	17	10,757,593 - 10,758,188	NCBI	Rnor6.0
Rnor_5.0	17	12,883,446 - 12,884,041	UniSTS	Rnor5.0
RGSC_v3.4	17	16,314,403 - 16,314,998	UniSTS	RGSC3.4
Celera	17	10,295,437 - 10,296,032	UniSTS
Cytogenetic Map	17	p14	UniSTS

QTLs in Region (Rnor_6.0)

The following QTLs overlap with this region.

RGD ID	Symbol	Name	LOD	P Value	Trait	Sub Trait	Chr	Start	Stop	Species
9590316	Scort21	Serum corticosterone level QTL 21	4.75	0.001	blood corticosterone amount (VT:0005345)	plasma corticosterone level (CMO:0001173)	17	1	24787908	Rat
10401807	Kidm52	Kidney mass QTL 52			kidney mass (VT:0002707)	both kidneys wet weight (CMO:0000085)	17	1	32230361	Rat
70184	BpQTLcluster14	Blood pressure QTL cluster 14	3.38		arterial blood pressure trait (VT:2000000)	systolic blood pressure (CMO:0000004)	17	1	33303755	Rat
631207	Niddm41	Non-insulin dependent diabetes mellitus QTL 41			blood glucose amount (VT:0000188)	plasma glucose level (CMO:0000042)	17	1	38243814	Rat
1354658	Spl8	Serum phospholipid level QTL 8	3.8		blood VLDL phospholipid amount (VT:0010507)	blood very low density lipoprotein phospholipid level (CMO:0001571)	17	1	63676140	Rat
1354662	Rf49	Renal function QTL 49	2.9		blood creatinine amount (VT:0005328)	plasma creatinine level (CMO:0000537)	17	1	73413148	Rat
1354581	Bp247	Blood pressure QTL 247	4.5		arterial blood pressure trait (VT:2000000)	pulse pressure (CMO:0000292)	17	1	73413148	Rat
1641902	Colcr7	Colorectal carcinoma resistance QTL 7	3.35	0.0044	intestine integrity trait (VT:0010554)	benign colorectal tumor surface area measurement (CMO:0001799)	17	519770	23422380	Rat
1300123	Bp194	Blood pressure QTL 194	2.82		arterial blood pressure trait (VT:2000000)	mean arterial blood pressure (CMO:0000009)	17	519770	36283402	Rat
2324619	Coatc4	Coat color QTL 4		0.001	coat/hair pigmentation trait (VT:0010463)	pigmented coat/hair area to total coat/hair area ratio (CMO:0001810)	17	3336972	24030841	Rat
2324619	Coatc4	Coat color QTL 4		0.001	coat/hair pigmentation trait (VT:0010463)	pigmented dorsal coat/hair area to total dorsal coat/hair area ratio (CMO:0001811)	17	3336972	24030841	Rat
1354613	Kidm14	Kidney mass QTL 14	6.2		kidney mass (VT:0002707)	left kidney wet weight (CMO:0000083)	17	3336972	37790462	Rat
1354596	Bw32	Body weight QTL 32	4.5		body mass (VT:0001259)	body weight (CMO:0000012)	17	3336972	63676140	Rat
1354638	Insul1	Insulin level QTL 1	4.8		blood insulin amount (VT:0001560)	plasma insulin level (CMO:0000342)	17	3336972	73413148	Rat
1354651	Lmblg2	Limb length QTL 2	6		tibia length (VT:0004357)	tibia length (CMO:0000450)	17	3336972	73413148	Rat
1354630	Cm34	Cardiac mass QTL 34	8.7		heart left ventricle mass (VT:0007031)	heart left ventricle wet weight (CMO:0000071)	17	3336972	73413148	Rat
631499	Stl1	Serum triglyceride level QTL 1	3.6		blood triglyceride amount (VT:0002644)	blood triglyceride level (CMO:0000118)	17	3414039	28073589	Rat
2293648	Bmd31	Bone mineral density QTL 31	4.5	0.0001	femur size trait (VT:1000369)	femoral neck cortical cross-sectional area (CMO:0001702)	17	4716067	27691136	Rat
2293664	Bmd28	Bone mineral density QTL 28	5.1	0.0001	femur mineral mass (VT:0010011)	trabecular volumetric bone mineral density (CMO:0001729)	17	4716067	27691136	Rat
2303627	Vencon8	Ventilatory control QTL 8		0.001	respiration trait (VT:0001943)	tidal volume (CMO:0000222)	17	5191047	50191047	Rat
10054088	Scort28	Serum corticosterone level QTL 28	2.04	0.0102	blood corticosterone amount (VT:0005345)	plasma corticosterone level (CMO:0001173)	17	5191047	50191047	Rat
1581553	Pur14	Proteinuria QTL 14	5.3	0.0001	total urine protein amount (VT:0000032)	urine protein excretion rate (CMO:0000759)	17	8424467	16620067	Rat
1582224	Epfw4	Epididymal fat weight QTL 4	3.5	0.0058	epididymal fat pad mass (VT:0010421)	epididymal fat pad weight to body weight ratio (CMO:0000658)	17	9730263	21491085	Rat
1582225	Bw67	Body weight QTL 67	6.2	0.0001	body mass (VT:0001259)	body weight (CMO:0000012)	17	9730263	21491085	Rat
1582226	Bw64	Body weight QTL 64	4.2	0.0017	body mass (VT:0001259)	body weight (CMO:0000012)	17	9730263	21491085	Rat
1582241	Bw70	Body weight QTL 70	4.6	0.0003	body mass (VT:0001259)	body weight (CMO:0000012)	17	9730263	21491085	Rat
1582245	Bw73	Body weight QTL 73	4.6	0.0004	body mass (VT:0001259)	body weight (CMO:0000012)	17	9730263	21491085	Rat
1582258	Bw76	Body weight QTL 76	4.6	0.0005	body mass (VT:0001259)	body weight (CMO:0000012)	17	9730263	21491085	Rat
1582199	Insul5	Insulin level QTL 5	3.4	0.0119	blood insulin amount (VT:0001560)	calculated serum insulin level (CMO:0000359)	17	9730263	21491085	Rat
1582208	Kidm32	Kidney mass QTL 32	3.9	0.0018	kidney mass (VT:0002707)	both kidneys wet weight (CMO:0000085)	17	9730263	21491085	Rat
2303561	Bw91	Body weight QTL 91	2		body mass (VT:0001259)	body weight (CMO:0000012)	17	9827304	54827304	Rat
2300002	Iddm36	Insulin dependent diabetes mellitus QTL 36	1.98		blood glucose amount (VT:0000188)	blood glucose level (CMO:0000046)	17	10529709	42542027	Rat

miRNA Target Status

Predicted Target Of

	Summary Value
Count of predictions:	271
Count of miRNA genes:	151
Interacting mature miRNAs:	166
Transcripts:	ENSRNOT00000000117
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.

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			5						74	21	32	11
Low	3	43	52	41	19	41	8	11		14	8		8
Below cutoff											1

View RNA-SEQ Expression Data

Sequence

Nucleotide Sequences


RefSeq Transcripts	NM_053878	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	XM_017600440	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	XM_017600441	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
GenBank Nucleotide	AABR07027010	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	AABR07027011	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	AAHX01090024	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	CH474032	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	D70816	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	U35099	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles

Reference Sequences

RefSeq Acc Id:

ENSRNOT00000000117 ⟹ ENSRNOP00000000117

RefSeq Status:

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
Rnor_6.0 Ensembl	17	10,757,782 - 10,766,253 (-)	Ensembl

RefSeq Acc Id:

ENSRNOT00000091046 ⟹ ENSRNOP00000072664

RefSeq Status:

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
Rnor_6.0 Ensembl	17	10,756,285 - 10,818,835 (-)	Ensembl

RefSeq Acc Id:

NM_053878 ⟹ NP_446330

RefSeq Status:

PROVISIONAL

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
Rnor_6.0	17	10,757,782 - 10,766,253 (-)	NCBI
Rnor_5.0	17	12,880,802 - 12,952,180 (-)	NCBI
RGSC_v3.4	17	16,314,592 - 16,322,938 (-)	RGD
Celera	17	10,295,626 - 10,303,931 (-)	RGD

Sequence:

show sequence

ATTCCGGCTGTACGGCGTCAGGGCCTGGCTGAGGGGCGTGATTGGAGGGCGCCTTCGGCATCCG
CCCGCCCGCGGCAGCAGCCTCGGTCCCAGCTCGCCTGGCGGAGCCACACCAGGCAGCGGCGCGA
GCTGGCTGAGCACACCGCACTGCCTGCTGGAGTCAGCCGGAGCCCTGCAGTGGCTTAGACGGTT
GCTGGGACCACCAGGCGAGCTCATTCCCCGAAGGCAGACCAGCCAGGAGTGCTGAATGCGAATT
CAGTCACGGGCTAGGGAGCACTAACCAAAGCCTGTAGGATGGACTTCGTCATGAAGCAAGCCCT
CGGAGGGGCCACCAAGGACATGGGGAAGATGCTGGGGGGAGAGGAGGAGAAGGACCCAGATGCA
CAGAAGAAGGAGGAGGAGCGGCAGGAGGCCCTGAGGCAGCAGGAGGAAGAGCGCAAGGCCAAAC
ATGCCCGCATGGAAGCGGAACGTGAGAAGGTCCGGCAGCAGATTCGAGATAAGTATGGGCTGAA
GAAGAAAGAAGAGAAGGAGGCAGAGGAGAAGGCAGCCCTGGAACAGCCCTGCGAGGGAAGCCTG
ACCAGACCCAAGAAGGCCATCCCTGCAGGCTGTGGGGACGAGGAGGAGGAAGAAGAGGAGAGCA
TCCTGGACACGGTGCTCAAATATCTGCCGGGGCCACTGCAGGACATGTTCAAGAAGTAACCTGT
CCTCTTCCGGCCCCGTCCACGTTATGACTTTTTTTTTTTTTTTTTTGGTGTTCCTAGTTTTTCT
TTTCTTTTTTATTCAGTTAAGTCTCAGTTCCAAAGGGGAAAACCTCAGTCGGCCTCTGCCCCCT
TTCCCTCAGCAACCCTTCACAAGCCCTTCATCCAGGGTTTCTAGTTCTGTTTCACTCCCAAGTA
GCTTGGAGCCGGAATT

hide sequence

RefSeq Acc Id:

XM_017600440 ⟹ XP_017455929

RefSeq Status:

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
Rnor_6.0	17	10,756,871 - 10,828,811 (-)	NCBI

Sequence:

show sequence

CCTCTTGCCTTCCCAGCCGTTTCTTCTGCCACTCGCTGTTGTCCCAGCAGCCAGCCCCCGCCTC
CCTTCTCAGGAAGCTCGGGTCTCCCTGGGAGCCGGGCTGCCCTTGGGGGAGGCCTCTGAGCTGT
GCTCCCTGCAGCTCCGCCAGCTTTCGGGGCGACCTTAGAGGGGCTCTGCGCCCCCCGTGTGGCT
CGCGCTAAGCCCGGCAGGAGGGAGCGTCTCGGCGGAGGAGTGAGGAGGACGGGAGGGAGAGGCG
GGCCAGAGCCTCGGTCCCGGGCGCCCTGGTCGGCCGCGGAGGAACTGCAGCCTCCAACAGGAAG
TCAAGCATCTCTGACATGCTATCTACCCTGCTTGGTGCCTGAGGATCCTGCATCCCGGCTCATC
CAGGAAGCACAGGCGAGCTCATTCCCCGAAGGCAGACCAGCCAGGAGTGCTGAATGCGAATTCA
GTCACGGGCTAGGGAGCACTAACCAAAGCCTGTAGGATGGACTTCGTCATGAAGCAAGCCCTCG
GAGGGGCCACCAAGGACATGGGGAAGATGCTGGGGGGAGAGGAGGAGAAGGACCCAGATGCACA
GAAGAAGGAGGAGGAGCGGCAGGAGGCCCTGAGGCAGCAGGAGGAAGAGCGCAAGGCCAAACAT
GCCCGCATGGAAGCGGAACGTGAGAAGGTCCGGCAGCAGATTCGAGATAAGTATGGGCTGAAGA
AGAAAGAAGAGAAGGAGGCAGAGGAGAAGGCAGCCCTGGAACAGCCCTGCGAGGGAAGCCTGAC
CAGACCCAAGAAGGCCATCCCTGCAGGCTGTGGGGACGAGGAGGAGGAAGAAGAGGAGAGCATC
CTGGACACGGTGCTCAAATATCTGCCGGGGCCACTGCAGGACATGTTCAAGAAGTAACCTGTCC
TCTTCCGGCCCCGTCCACGTTATGACTTTTTTTTTTTTTTTTTTTGGTGTTCCTAGTTTTTCTT
TTCTTTTTTTATTCAGTTAAGTCTCAGTTCCAAAGGGGAAAACCTCAGTCGGCCTCTGCCCCCT
TTCCCTCAGCAACCCTTCACAAGCCCTTCATCCAGGGTTTCTAGTTCTGTTTCACTCCCAAGTA
GCTTGGAGAAAAAAAAAGAAGAAGACAGTTTAACTCCAGCAGGGGGCATCGAACCCAGAGCCAA
AGGCACTGGGTGCCCCCCCAGAAGCTCATGGTCTACATTAGTGTGGTAACACTCCCCCCCATAC
ATTCCTTCATGCTCCCCACTGCCAGGAGGACCACTGTCCCCAGCCAGCCAAAGTAATGACACAT
TCCAGCCCTGCCCAGCATGCTGACCGTTGGCCTCTGAACCCCCAGTGGGAGTCCAGGTCAGGGC
AGAGGCACCTAGTGGTCTGGCTCCAGGAAGGCTATTCAGAAAAAGCCTGCTCTGGAGAGCCTAG
CTCTGAGAGGCTCTAGCTGGGTCTAGCCAGGTTCGAATCTGGCCTGGGCTGTCCTCTTTCCTCT
TCCTGGTGCCACTGGCCAGGAACACACCTCCTCCCAACCCGACCTAAAGAAGCATGGTTCCTGA
GGAGCCGCACCCTCCAAATGGATCCTCTTTGGACTTTAGCACATCTGTGGAGGAGCCCAGGGCA
GGGCAACCCCTTATCCTTTCTCATCTGACTTAGGTCCTGGGTCCCCACTGCCAGGCTAGGCCCC
AGTTTGCCCAGCCAAGGGGTTGCCCAGGCCCACAGAAAATACTTGGAGCCATCGGGCAGTGACG
GTCTGTGCCACGAGGCCCCTCATCGGTACGGCCAAACTGCCCCCATTCCTGTCCACCCCTCTTC
CTTCCATGTCCCGTCCATGTGCTTCCAAGTCCCCATTGTCCCCAGGAGGACTCTTCTTGGCCAA
AGCCCCAGAGAGCTGGGGAGAAAGAAGCCAATTGTCACCTGGCAAAAGACTGTCCATTCATCCC
ACTGGCCAAGAGTCAGCTCTCCTCTGGGATGAATAGGACTGGTATGTGTCCTCACGTACCACGC
CATCAAGGCTTCCTGCTCTGTGA

hide sequence

RefSeq Acc Id:

XM_017600441 ⟹ XP_017455930

RefSeq Status:

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
Rnor_6.0	17	10,756,871 - 10,828,811 (-)	NCBI

Sequence:

show sequence

CCTCTTGCCTTCCCAGCCGTTTCTTCTGCCACTCGCTGTTGTCCCAGCAGCCAGCCCCCGCCTC
CCTTCTCAGGAAGCTCGGGTCTCCCTGGGAGCCGGGCTGCCCTTGGGGGAGGCCTCTGAGCTGT
GCTCCCTGCAGCTCCGCCAGCTTTCGGGGCGACCTTAGAGGGGCTCTGCGCCCCCCGTGTGGCT
CGCGCTAAGCCCGGCAGGAGGGAGCGTCTCGGCGGAGGAGTGAGGAGGACGGGAGGGAGAGGCG
GGCCAGAGCCTCGGTCCCGGGCGCCCTGGTCGGCCGCGGAGGAACTGCAGCCTCCAACAGGCGA
GCTCATTCCCCGAAGGCAGACCAGCCAGGAGTGCTGAATGCGAATTCAGTCACGGGCTAGGGAG
CACTAACCAAAGCCTGTAGGATGGACTTCGTCATGAAGCAAGCCCTCGGAGGGGCCACCAAGGA
CATGGGGAAGATGCTGGGGGGAGAGGAGGAGAAGGACCCAGATGCACAGAAGAAGGAGGAGGAG
CGGCAGGAGGCCCTGAGGCAGCAGGAGGAAGAGCGCAAGGCCAAACATGCCCGCATGGAAGCGG
AACGTGAGAAGGTCCGGCAGCAGATTCGAGATAAGTATGGGCTGAAGAAGAAAGAAGAGAAGGA
GGCAGAGGAGAAGGCAGCCCTGGAACAGCCCTGCGAGGGAAGCCTGACCAGACCCAAGAAGGCC
ATCCCTGCAGGCTGTGGGGACGAGGAGGAGGAAGAAGAGGAGAGCATCCTGGACACGGTGCTCA
AATATCTGCCGGGGCCACTGCAGGACATGTTCAAGAAGTAACCTGTCCTCTTCCGGCCCCGTCC
ACGTTATGACTTTTTTTTTTTTTTTTTTTGGTGTTCCTAGTTTTTCTTTTCTTTTTTTATTCAG
TTAAGTCTCAGTTCCAAAGGGGAAAACCTCAGTCGGCCTCTGCCCCCTTTCCCTCAGCAACCCT
TCACAAGCCCTTCATCCAGGGTTTCTAGTTCTGTTTCACTCCCAAGTAGCTTGGAGAAAAAAAA
AGAAGAAGACAGTTTAACTCCAGCAGGGGGCATCGAACCCAGAGCCAAAGGCACTGGGTGCCCC
CCCAGAAGCTCATGGTCTACATTAGTGTGGTAACACTCCCCCCCATACATTCCTTCATGCTCCC
CACTGCCAGGAGGACCACTGTCCCCAGCCAGCCAAAGTAATGACACATTCCAGCCCTGCCCAGC
ATGCTGACCGTTGGCCTCTGAACCCCCAGTGGGAGTCCAGGTCAGGGCAGAGGCACCTAGTGGT
CTGGCTCCAGGAAGGCTATTCAGAAAAAGCCTGCTCTGGAGAGCCTAGCTCTGAGAGGCTCTAG
CTGGGTCTAGCCAGGTTCGAATCTGGCCTGGGCTGTCCTCTTTCCTCTTCCTGGTGCCACTGGC
CAGGAACACACCTCCTCCCAACCCGACCTAAAGAAGCATGGTTCCTGAGGAGCCGCACCCTCCA
AATGGATCCTCTTTGGACTTTAGCACATCTGTGGAGGAGCCCAGGGCAGGGCAACCCCTTATCC
TTTCTCATCTGACTTAGGTCCTGGGTCCCCACTGCCAGGCTAGGCCCCAGTTTGCCCAGCCAAG
GGGTTGCCCAGGCCCACAGAAAATACTTGGAGCCATCGGGCAGTGACGGTCTGTGCCACGAGGC
CCCTCATCGGTACGGCCAAACTGCCCCCATTCCTGTCCACCCCTCTTCCTTCCATGTCCCGTCC
ATGTGCTTCCAAGTCCCCATTGTCCCCAGGAGGACTCTTCTTGGCCAAAGCCCCAGAGAGCTGG
GGAGAAAGAAGCCAATTGTCACCTGGCAAAAGACTGTCCATTCATCCCACTGGCCAAGAGTCAG
CTCTCCTCTGGGATGAATAGGACTGGTATGTGTCCTCACGTACCACGCCATCAAGGCTTCCTGC
TCTGTGA

hide sequence

Protein Sequences


Protein RefSeqs	NP_446330	(Get FASTA)	NCBI Sequence Viewer
	XP_017455929	(Get FASTA)	NCBI Sequence Viewer
	XP_017455930	(Get FASTA)	NCBI Sequence Viewer
GenBank Protein	AAC52271	(Get FASTA)	NCBI Sequence Viewer
	BAA11096	(Get FASTA)	NCBI Sequence Viewer
	EDL94061	(Get FASTA)	NCBI Sequence Viewer
	P84087	(Get FASTA)	NCBI Sequence Viewer

Reference Sequences

RefSeq Acc Id:	NP_446330 ⟸ NM_053878
- UniProtKB:	P84087 (UniProtKB/Swiss-Prot)
- Sequence:	show sequence MDFVMKQALGGATKDMGKMLGGEEEKDPDAQKKEEERQEALRQQEEERKAKHARMEAEREKVRQ QIRDKYGLKKKEEKEAEEKAALEQPCEGSLTRPKKAIPAGCGDEEEEEEESILDTVLKYLPGPL QDMFKK hide sequence

RefSeq Acc Id:	XP_017455930 ⟸ XM_017600441
- Peptide Label:	isoform X1
- UniProtKB:	P84087 (UniProtKB/Swiss-Prot)
- Sequence:	show sequence MDFVMKQALGGATKDMGKMLGGEEEKDPDAQKKEEERQEALRQQEEERKAKHARMEAEREKVRQ QIRDKYGLKKKEEKEAEEKAALEQPCEGSLTRPKKAIPAGCGDEEEEEEESILDTVLKYLPGPL QDMFKK hide sequence

RefSeq Acc Id:	XP_017455929 ⟸ XM_017600440
- Peptide Label:	isoform X1
- UniProtKB:	P84087 (UniProtKB/Swiss-Prot)
- Sequence:	show sequence MDFVMKQALGGATKDMGKMLGGEEEKDPDAQKKEEERQEALRQQEEERKAKHARMEAEREKVRQ QIRDKYGLKKKEEKEAEEKAALEQPCEGSLTRPKKAIPAGCGDEEEEEEESILDTVLKYLPGPL QDMFKK hide sequence

RefSeq Acc Id:

ENSRNOP00000000117 ⟸ ENSRNOT00000000117

RefSeq Acc Id:

ENSRNOP00000072664 ⟸ ENSRNOT00000091046

Transcriptome

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

Promoters

RGD ID:

13700326

Promoter ID:

EPDNEW_R10850

Type:

multiple initiation site

Name:

Cplx2_1

Description:

complexin 2

SO ACC ID:

SO:0000170

Source:

EPDNEW (Eukaryotic Promoter Database, http://epd.vital-it.ch/)

Experiment Methods:

Single-end sequencing.

Position:

Rat Assembly	Chr	Position (strand)	Source
Rnor_6.0	17	10,766,150 - 10,766,210	EPDNEW

Strain Variation

Strain Sequence Variants (Rnor 6.0)

ACI/EurMcwi (MCW)

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Sequenced By:	Medical College of Wisconsin (Dr. Howard Jacob)
Platform:	Illumina HiSeq 2000
Secondary Analysis:	BWA v0.7.7 and GATK v3.2-2
Breeder:	Medical College of Wisconsin
Description:	Provided by the Medical College of Wisconsin (Dr. Howard Jacob)

ACI/EurMcwi (RGD)

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Platform:	Illumina HiSeq 2000
Secondary Analysis:	BWA mem 0.7.15, GATK v.3.6-0
Description:	Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD

ACI/N (MCW)

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Sequenced By:	Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen) Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform:	SOLiD 4 and 5500
Secondary Analysis:	liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder:	National Institutes of Health
Description:	Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin

BBDP/Wor (RGD)

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Platform:	Illumina HiSeq 2000
Secondary Analysis:	BWA mem 0.7.15, GATK v.3.6-0
Description:	Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD

BN/SsN (MCW)

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Sequenced By:	Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen) Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform:	SOLiD 4 and 5500
Secondary Analysis:	liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder:	National Institutes of Health
Description:	Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin

Buf/N (MCW)

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Sequenced By:	Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen) Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform:	SOLiD 4 and 5500
Secondary Analysis:	liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder:	National Institutes of Health
Description:	Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin

COP/CrCrl (MCW & UW)

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Sequenced By:	Medical College of Wisconsin (Dr. Howard Jacob) University of Wisconsin (Dr. James Shull)
Platform:	Illumina HiSeq 2000
Secondary Analysis:	BWA v0.7.7 and GATK v3.2-2
Breeder:	Charles River Laboratories
Description:	Provided by the Medical College of Wisconsin (Dr. Howard Jacob) and UW Madison (Dr. James Shull)

F344/NCrl (RGD)

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Platform:	Illumina HiSeq 2000
Secondary Analysis:	BWA mem 0.7.15, GATK v.3.6-0
Description:	Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD

F344/NRrrc (MCW)

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Sequenced By:	Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen) Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform:	SOLiD 4 and 5500
Secondary Analysis:	liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder:	National Institutes of Health
Description:	Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin

FHH/EurMcwi (MCW)

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Sequenced By:	Medical College of Wisconsin (Dr. Howard Jacob)
Platform:	Illumina HiSeq 2000
Secondary Analysis:	BWA v0.7.7 and GATK v3.2-2
Breeder:	Medical College of Wisconsin
Description:	Provided by the Medical College of Wisconsin (Dr. Howard Jacob)

FHH/EurMcwi (RGD)

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Platform:	Illumina HiSeq 2000
Secondary Analysis:	BWA mem 0.7.15, GATK v.3.6-0
Description:	Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD

FHL/EurMcwi (MCW)

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Sequenced By:	Medical College of Wisconsin (Dr. Howard Jacob)
Platform:	Illumina HiSeq 2000
Secondary Analysis:	BWA v0.7.7 and GATK v3.2-2
Breeder:	Medical College of Wisconsin
Description:	Provided by the Medical College of Wisconsin (Dr. Howard Jacob)

FHL/EurMcwi (RGD)

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Platform:	Illumina HiSeq 2000
Secondary Analysis:	BWA mem 0.7.15, GATK v.3.6-0
Description:	Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD

GH/OmrMcwi (MCW)

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Sequenced By:	Medical College of Wisconsin (Dr. Howard Jacob)
Platform:	Illumina HiSeq 2000
Secondary Analysis:	BWA v0.7.7 and GATK v3.2-2
Breeder:	Medical College of Wisconsin
Description:	Provided by the Medical College of Wisconsin (Dr. Howard Jacob)

GK/Ox (RGD)

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Platform:	Illumina HiSeq 2000
Secondary Analysis:	BWA mem 0.7.15, GATK v.3.6-0
Description:	Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD

LE/Stm (RGD)

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Platform:	Illumina HiSeq 2000
Secondary Analysis:	BWA mem 0.7.15, GATK v.3.6-0
Description:	Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD

LEW/Crl (RGD)

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Platform:	Illumina HiSeq 2000
Secondary Analysis:	BWA mem 0.7.15, GATK v.3.6-0
Description:	Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD

LEW/NCrlBR (RGD)

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Platform:	Illumina HiSeq 2000
Secondary Analysis:	BWA mem 0.7.15, GATK v.3.6-0
Description:	Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD

LH/MavRrrc (RGD)

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Platform:	Illumina HiSeq 2000
Secondary Analysis:	BWA mem 0.7.15, GATK v.3.6-0
Description:	Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD

LL/MavRrrc (RGD)

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Platform:	Illumina HiSeq 2000
Secondary Analysis:	BWA mem 0.7.15, GATK v.3.6-0
Description:	Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD

LN/MavRrrc (RGD)

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Platform:	Illumina HiSeq 2000
Secondary Analysis:	BWA mem 0.7.15, GATK v.3.6-0
Description:	Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD

M520/N (MCW)

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Sequenced By:	Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen) Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform:	SOLiD 4 and 5500
Secondary Analysis:	liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder:	National Institutes of Health
Description:	Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin

MHS/Gib (RGD)

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Platform:	Illumina HiSeq 2000
Secondary Analysis:	BWA mem 0.7.15, GATK v.3.6-0
Description:	Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD

MNS/Gib (RGD)

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Platform:	Illumina HiSeq 2000
Secondary Analysis:	BWA mem 0.7.15, GATK v.3.6-0
Description:	Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD

MR/N (MCW)

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Sequenced By:	Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen) Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform:	SOLiD 4 and 5500
Secondary Analysis:	liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder:	National Institutes of Health
Description:	Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin

SBH/Ygl (MCW)

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Sequenced By:	Medical College of Wisconsin (Dr. Howard Jacob)
Platform:	Illumina HiSeq 2000
Secondary Analysis:	BWA v0.7.7 and GATK v3.2-2
Breeder:	Medical College of Wisconsin
Description:	SBH/Ygl sequenced by MCW

SBH/Ygl (RGD)

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Platform:	Illumina HiSeq 2000
Secondary Analysis:	BWA mem 0.7.15, GATK v.3.6-0
Description:	Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD

SBN/Ygl (MCW)

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Sequenced By:	Medical College of Wisconsin (Dr. Howard Jacob)
Platform:	Illumina HiSeq 2000
Secondary Analysis:	BWA v0.7.7 and GATK v3.2-2
Breeder:	Medical College of Wisconsin
Description:	SBN/Ygl sequenced by MCW

SBN/Ygl (RGD)

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Platform:	Illumina HiSeq 2000
Secondary Analysis:	BWA mem 0.7.15, GATK v.3.6-0
Description:	Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD

SHR/NHsd (RGD)

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Platform:	Illumina HiSeq 2000
Secondary Analysis:	BWA mem 0.7.15, GATK v.3.6-0
Description:	Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD

SHRSP/Gcrc (RGD)

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Platform:	Illumina HiSeq 2000
Secondary Analysis:	BWA mem 0.7.15, GATK v.3.6-0
Description:	Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD

SR/JrHsd (MCW)

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Sequenced By:	Medical College of Wisconsin (Dr. Howard Jacob)
Platform:	Illumina HiSeq 2000
Secondary Analysis:	BWA v0.7.7 and GATK v3.2-2
Breeder:	Harlan Laboratories
Description:	Provided by the Medical College of Wisconsin (Dr. Howard Jacob)

SR/JrHsd (RGD)

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Platform:	Illumina HiSeq 2000
Secondary Analysis:	BWA mem 0.7.15, GATK v.3.6-0
Description:	Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD

SS/Jr (RGD)

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Platform:	Illumina HiSeq 2000
Secondary Analysis:	BWA mem 0.7.15, GATK v.3.6-0
Description:	Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD

SS/JrHsdMcwi (MCW)

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Sequenced By:	Medical College of Wisconsin (Dr. Howard Jacob)
Platform:	Illumina HiSeq 2000
Secondary Analysis:	BWA v0.7.7 and GATK v3.2-2
Breeder:	Medical College of Wisconsin
Description:	Provided by the Medical College of Wisconsin (Dr. Howard Jacob)

SS/JrHsdMcwi (RGD)

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CSV

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Platform:	Illumina HiSeq 2000
Secondary Analysis:	BWA mem 0.7.15, GATK v.3.6-0
Description:	Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD

WAG/Rij (RGD)

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Platform:	Illumina HiSeq 2000
Secondary Analysis:	BWA mem 0.7.15, GATK v.3.6-0
Description:	Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD

WKY/Gcrc (RGD)

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Platform:	Illumina HiSeq 2000
Secondary Analysis:	BWA mem 0.7.15, GATK v.3.6-0
Description:	Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD

WKY/N (MCW)

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Sequenced By:	Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen) Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform:	SOLiD 4 and 5500
Secondary Analysis:	liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder:	National Institutes of Health
Description:	Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin

WKY/NCrl (RGD)

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Platform:	Illumina HiSeq 2000
Secondary Analysis:	BWA mem 0.7.15, GATK v.3.6-0
Description:	Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD

WKY/NHsd (RGD)

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Platform:	Illumina HiSeq 2000
Secondary Analysis:	BWA mem 0.7.15, GATK v.3.6-0
Description:	Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD

WN/N (MCW)

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Sequenced By:	Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen) Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform:	SOLiD 4 and 5500
Secondary Analysis:	liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder:	National Institutes of Health
Description:	Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin

Additional Information

External Database Links

Database	Acc Id	Source(s)
AGR Gene	RGD:70945	AgrOrtholog
Ensembl Genes	ENSRNOG00000000105	Ensembl, ENTREZGENE, UniProtKB/Swiss-Prot
Ensembl Protein	ENSRNOP00000000117	ENTREZGENE, UniProtKB/Swiss-Prot
	ENSRNOP00000072664	ENTREZGENE, UniProtKB/Swiss-Prot
Ensembl Transcript	ENSRNOT00000000117	ENTREZGENE, UniProtKB/Swiss-Prot
	ENSRNOT00000091046	ENTREZGENE, UniProtKB/Swiss-Prot
InterPro	Synaphin	UniProtKB/Swiss-Prot
KEGG Report	rno:116657	UniProtKB/Swiss-Prot
NCBI Gene	116657	ENTREZGENE
PANTHER	PTHR16705	UniProtKB/Swiss-Prot
Pfam	Synaphin	UniProtKB/Swiss-Prot
PhenoGen	Cplx2	PhenoGen
UniGene	Rn.10134	ENTREZGENE
UniProt	CPLX2_RAT	UniProtKB/Swiss-Prot, ENTREZGENE
UniProt Secondary	O09056	UniProtKB/Swiss-Prot
	Q13329	UniProtKB/Swiss-Prot
	Q28184	UniProtKB/Swiss-Prot
	Q64386	UniProtKB/Swiss-Prot

Nomenclature History

Date	Current Symbol	Current Name	Previous Symbol	Previous Name	Description	Reference	Status
2002-07-09	Cplx2	complexin 2			Symbol and Name updated to reflect Human and Mouse nomenclature	70877	APPROVED

RGD Curation Notes

Note Type	Note	Reference

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)

Imported Disease Annotations - CTD