Advanced Search (OLGA)

Gene: Syce1 (synaptonemal complex central element protein 1) Rattus norvegicus

Analyze

Symbol:

Syce1

Name:

synaptonemal complex central element protein 1

RGD ID:

1559853

Description:

Predicted to be involved in cell division and synaptonemal complex assembly. Located in synaptonemal complex. Human ortholog(s) of this gene implicated in primary ovarian insufficiency 12 and spermatogenic failure 15. Orthologous to human SYCE1 (synaptonemal complex central element protein 1); INTERACTS WITH 6-propyl-2-thiouracil; bisphenol A; glyphosate.

Type:

protein-coding

RefSeq Status:

VALIDATED

Previously known as:

hypothetical protein LOC502372; LOC502372; telomeric protein

RGD Orthologs

Alliance Orthologs

More Info

more info ...

Latest Assembly:

GRCr8 - GRCr8 Assembly

Position:

Rat Assembly	Chr	Position (strand)	Source	Genome Browsers
Rat Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCr8	1	205,281,808 - 205,292,811 (-)	NCBI		GRCr8
mRatBN7.2	1	195,852,171 - 195,863,174 (-)	NCBI	mRatBN7.2	mRatBN7.2
mRatBN7.2 Ensembl	1	195,852,172 - 195,863,174 (-)	Ensembl		mRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx	1	204,194,591 - 204,205,587 (-)	NCBI	Rnor_SHR	UTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0	1	211,321,496 - 211,332,490 (-)	NCBI	Rnor_SHRSP	UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0	1	203,995,349 - 204,006,343 (-)	NCBI	Rnor_WKY	UTH_Rnor_WKY_Bbb_1.0
Rnor_6.0	1	213,523,638 - 213,534,641 (-)	NCBI	Rnor6.0	Rnor_6.0	rn6	Rnor6.0
Rnor_6.0 Ensembl	1	213,523,639 - 213,534,641 (-)	Ensembl	Rnor6.0		rn6	Rnor6.0
Rnor_5.0	1	220,418,169 - 220,429,340 (-)	NCBI	Rnor5.0	Rnor_5.0	rn5	Rnor5.0
RGSC_v3.4	1	200,930,362 - 200,941,365 (-)	NCBI	RGSC3.4	RGSC_v3.4	rn4	RGSC3.4
Celera	1	193,496,215 - 193,507,224 (-)	NCBI		Celera
Cytogenetic Map	1	q41	NCBI

JBrowse:

View Region in Genome Browser (JBrowse)

Model

Annotation Click to see Annotation Detail View

Disease Annotations Click to see Annotation Detail View

amenorrhea (ISO)

distal 10q deletion syndrome (ISO)

primary ovarian insufficiency 12 (ISO,ISS)

spermatogenic failure 15 (ISO)

Gene-Chemical Interaction Annotations Click to see Annotation Detail View

6-propyl-2-thiouracil (EXP)

aristolochic acid A (ISO)

benzo[a]pyrene (ISO)

benzo[b]fluoranthene (ISO)

Benzo[k]fluoranthene (ISO)

bisphenol A (EXP,ISO)

CGP 52608 (ISO)

glyphosate (EXP)

potassium dichromate (ISO)

titanium dioxide (ISO)

trichloroethene (EXP)

valproic acid (ISO)

Gene Ontology Annotations Click to see Annotation Detail View

Biological Process

cell division (IEA)

synaptonemal complex assembly (IEA)

Cellular Component

central element (ISO)

chromosome (ISO)

synaptonemal complex (IBA,IDA)

Molecular Function

protein binding (ISO)

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.	Characterization of a novel meiosis-specific protein within the central element of the synaptonemal complex.	Hamer G, etal., J Cell Sci. 2006 Oct 1;119(Pt 19):4025-32. Epub 2006 Sep 12.
3.	GOA pipeline	RGD automated data pipeline
4.	Data Import for Chemical-Gene Interactions	RGD automated import pipeline for gene-chemical interactions
5.	Generation and initial analysis of more than 15,000 full-length human and mouse cDNA sequences.	Strausberg RL, etal., Proc Natl Acad Sci U S A. 2002 Dec 24;99(26):16899-903. Epub 2002 Dec 11.

Additional References at PubMed

PMID:15489334	PMID:15944401	PMID:22164254

Genomics

Comparative Map Data

Syce1
(Rattus norvegicus - Norway rat)

Rat Assembly	Chr	Position (strand)	Source	Genome Browsers
Rat Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCr8	1	205,281,808 - 205,292,811 (-)	NCBI		GRCr8
mRatBN7.2	1	195,852,171 - 195,863,174 (-)	NCBI	mRatBN7.2	mRatBN7.2
mRatBN7.2 Ensembl	1	195,852,172 - 195,863,174 (-)	Ensembl		mRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx	1	204,194,591 - 204,205,587 (-)	NCBI	Rnor_SHR	UTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0	1	211,321,496 - 211,332,490 (-)	NCBI	Rnor_SHRSP	UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0	1	203,995,349 - 204,006,343 (-)	NCBI	Rnor_WKY	UTH_Rnor_WKY_Bbb_1.0
Rnor_6.0	1	213,523,638 - 213,534,641 (-)	NCBI	Rnor6.0	Rnor_6.0	rn6	Rnor6.0
Rnor_6.0 Ensembl	1	213,523,639 - 213,534,641 (-)	Ensembl	Rnor6.0		rn6	Rnor6.0
Rnor_5.0	1	220,418,169 - 220,429,340 (-)	NCBI	Rnor5.0	Rnor_5.0	rn5	Rnor5.0
RGSC_v3.4	1	200,930,362 - 200,941,365 (-)	NCBI	RGSC3.4	RGSC_v3.4	rn4	RGSC3.4
Celera	1	193,496,215 - 193,507,224 (-)	NCBI		Celera
Cytogenetic Map	1	q41	NCBI

SYCE1
(Homo sapiens - human)

Human Assembly	Chr	Position (strand)	Source	Genome Browsers
Human Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCh38	10	133,553,899 - 133,568,291 (-)	NCBI	GRCh38	GRCh38	hg38	GRCh38
GRCh38.p14 Ensembl	10	133,553,901 - 133,569,835 (-)	Ensembl	GRCh38		hg38	GRCh38
GRCh37	10	135,367,403 - 135,381,795 (-)	NCBI	GRCh37	GRCh37	hg19	GRCh37
Build 36	10	135,217,395 - 135,232,866 (-)	NCBI	NCBI36	Build 36	hg18	NCBI36
Build 34	10	135,256,286 - 135,271,757	NCBI
Celera	10	128,138,411 - 128,153,759 (+)	NCBI		Celera
Cytogenetic Map	10	q26.3	NCBI
HuRef	10	128,909,390 - 128,923,681 (-)	NCBI		HuRef
CHM1_1	10	135,646,966 - 135,661,277 (-)	NCBI		CHM1_1
T2T-CHM13v2.0	10	134,505,424 - 134,519,736 (-)	NCBI		T2T-CHM13v2.0

Syce1
(Mus musculus - house mouse)

Mouse Assembly	Chr	Position (strand)	Source	Genome Browsers
Mouse Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCm39	7	140,357,142 - 140,367,767 (-)	NCBI	GRCm39	GRCm39	mm39
GRCm39 Ensembl	7	140,357,142 - 140,367,765 (-)	Ensembl		GRCm39 Ensembl
GRCm38	7	140,777,229 - 140,787,854 (-)	NCBI	GRCm38	GRCm38	mm10	GRCm38
GRCm38.p6 Ensembl	7	140,777,229 - 140,787,852 (-)	Ensembl	GRCm38		mm10	GRCm38
MGSCv37	7	147,963,128 - 147,973,753 (-)	NCBI	GRCm37	MGSCv37	mm9	NCBIm37
MGSCv36	7	147,963,127 - 147,973,944 (-)	NCBI		MGSCv36	mm8
Celera	7	140,569,517 - 140,580,142 (-)	NCBI		Celera
Cytogenetic Map	7	F4	NCBI
cM Map	7	85.96	NCBI

Syce1
(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_004955507	6,264,059 - 6,271,729 (+)	Ensembl	ChiLan1.0
ChiLan1.0	NW_004955507	6,263,070 - 6,271,289 (+)	NCBI	ChiLan1.0	ChiLan1.0

SYCE1
(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	8	145,695,334 - 145,719,200 (-)	NCBI		NHGRI_mPanPan1-v2
NHGRI_mPanPan1	10	145,700,700 - 145,849,141 (-)	NCBI		NHGRI_mPanPan1
PanPan1.1	10	134,866,705 - 134,878,535 (-)	NCBI	panpan1.1	PanPan1.1	panPan2
PanPan1.1 Ensembl	10	134,866,705 - 134,878,566 (-)	Ensembl	panpan1.1		panPan2

SYCE1
(Canis lupus familiaris - dog)

Dog Assembly	Chr	Position (strand)	Source	Genome Browsers
Dog Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
CanFam3.1	28	41,149,228 - 41,157,422 (-)	NCBI	CanFam3.1	CanFam3.1	canFam3	CanFam3.1
CanFam3.1 Ensembl	28	41,149,229 - 41,157,371 (-)	Ensembl	CanFam3.1		canFam3	CanFam3.1
Dog10K_Boxer_Tasha	28	41,241,619 - 41,249,792 (-)	NCBI		Dog10K_Boxer_Tasha
ROS_Cfam_1.0	28	41,824,772 - 41,832,937 (-)	NCBI		ROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl	28	41,824,773 - 41,832,892 (-)	Ensembl		ROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.1	28	41,305,518 - 41,313,687 (-)	NCBI		UMICH_Zoey_3.1
UNSW_CanFamBas_1.0	28	41,295,003 - 41,303,171 (-)	NCBI		UNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0	28	41,697,732 - 41,705,904 (-)	NCBI		UU_Cfam_GSD_1.0

Syce1
(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_024407213	5,830,142 - 5,838,013 (+)	NCBI		HiC_Itri_2
SpeTri2.0 Ensembl	NW_004936486	19,723,627 - 19,727,770 (-)	Ensembl	SpeTri2.0	SpeTri2.0 Ensembl
SpeTri2.0	NW_004936486	19,723,354 - 19,731,175 (-)	NCBI	SpeTri2.0	SpeTri2.0		SpeTri2.0

SYCE1
(Sus scrofa - pig)

Pig Assembly	Chr	Position (strand)	Source	Genome Browsers
Pig Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
Sscrofa11.1 Ensembl	14	141,726,208 - 141,735,919 (-)	Ensembl	Sscrofa11.1		susScr11	Sscrofa11.1
Sscrofa11.1	14	141,726,708 - 141,737,830 (-)	NCBI	Sscrofa11.1	Sscrofa11.1	susScr11	Sscrofa11.1
Sscrofa10.2	14	153,514,341 - 153,517,663 (-)	NCBI	Sscrofa10.2	Sscrofa10.2	susScr3

SYCE1
(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	26	53,416,791 - 53,429,688 (-)	NCBI	ChlSab1.1	ChlSab1.1	chlSab2
ChlSab1.1 Ensembl	26	53,418,202 - 53,428,756 (-)	Ensembl	ChlSab1.1	ChlSab1.1 Ensembl	chlSab2
Vero_WHO_p1.0	NW_023666054	41,548,799 - 41,560,744 (-)	NCBI	Vero_WHO_p1.0	Vero_WHO_p1.0

Syce1
(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_004624737	12,290,276 - 12,297,924 (+)	Ensembl	HetGla_female_1.0	HetGla_female_1.0 Ensembl	hetGla2
HetGla 1.0	NW_004624737	12,290,317 - 12,297,823 (+)	NCBI	HetGla_female_1.0	HetGla 1.0	hetGla2

miRNA Target Status

Predicted Target Of

	Summary Value
Count of predictions:	236
Count of miRNA genes:	161
Interacting mature miRNAs:	184
Transcripts:	ENSRNOT00000033074
Prediction methods:	Microtar, Miranda, Rnahybrid
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 (GRCr8)

The following QTLs overlap with this region.

RGD ID	Symbol	Name	LOD	P Value	Trait	Sub Trait	Chr	Start	Stop	Species
1578778	Pur4	Proteinuria QTL 4	3.3	0.003	urine total protein amount (VT:0000032)	urine total protein excretion rate (CMO:0000756)	1	160111531	262090437	Rat
1354646	Kidm18	Kidney mass QTL 18	5.7		kidney mass (VT:0002707)	calculated kidney weight (CMO:0000160)	1	160573753	266453731	Rat
1354652	Kidm20	Kidney mass QTL 20	4.3		kidney mass (VT:0002707)	calculated kidney weight (CMO:0000160)	1	186658830	266453731	Rat
1354653	Despr9	Despair related QTL 9		0.00019	locomotor behavior trait (VT:0001392)	amount of experiment time spent in a discrete space in an experimental apparatus (CMO:0000958)	1	177339686	222339686	Rat
2293673	Bss27	Bone structure and strength QTL 27	18.63	0.0001	femur morphology trait (VT:0000559)	femur midshaft cortical cross-sectional area (CMO:0001663)	1	181059071	226059071	Rat
2293677	Bss41	Bone structure and strength QTL 41	9.38	0.0001	lumbar vertebra size trait (VT:0010518)	lumbar vertebra cross-sectional area (CMO:0001689)	1	181059071	226059071	Rat
70160	Bw18	Body weight QTL 18	5.7		body mass (VT:0001259)	body weight (CMO:0000012)	1	153679879	205813246	Rat
1549830	Bss1	Bone structure and strength QTL 1	4.8		femur strength trait (VT:0010010)	femur ultimate force (CMO:0001675)	1	182039247	227039247	Rat
70163	Bw20	Body weight QTL 20	5.1		body mass (VT:0001259)	body weight (CMO:0000012)	1	183564652	228564652	Rat
1600395	Niddm69	Non-insulin dependent diabetes mellitus QTL 69	4.14	0.0002	blood insulin amount (VT:0001560)	plasma insulin level (CMO:0000342)	1	205233991	267096252	Rat
1354624	Cm35	Cardiac mass QTL35	5.7		heart left ventricle mass (VT:0007031)	calculated heart weight (CMO:0000073)	1	186658830	266453731	Rat
1600396	Niddm68	Non-insulin dependent diabetes mellitus QTL 68	4.97	0.0003	blood glucose amount (VT:0000188)	blood glucose level area under curve (AUC) (CMO:0000350)	1	205233991	267096252	Rat
1600397	Edcs4	Endometrial carcinoma susceptibility QTL 4	2.2		uterus morphology trait (VT:0001120)	percentage of study population developing endometrioid carcinoma during a period of time (CMO:0001759)	1	176288899	270518180	Rat
631838	Niddm36	Non-insulin dependent diabetes mellitus QTL 36		0.01	insulin secretion trait (VT:0003564)	calculated pancreatic islet insulin release measurement (CMO:0001217)	1	193964073	238964073	Rat
1354636	Lmblg1	Limb length QTL 1	6.4		tibia length (VT:0004357)	tibia length (CMO:0000450)	1	160573753	210707719	Rat
1549837	Hcar15	Hepatocarcinoma resistance QTL 15		0.05	liver integrity trait (VT:0010547)	liver tumorous lesion number (CMO:0001068)	1	162548015	270518180	Rat
2293689	Bss47	Bone structure and strength QTL 47	7.25	0.0001	lumbar vertebra size trait (VT:0010518)	lumbar vertebra trabecular cross-sectional area (CMO:0001692)	1	181059071	226059071	Rat
1600388	Niddm67	Non-insulin dependent diabetes mellitus QTL 67	5.84	0.000004	blood glucose amount (VT:0000188)	blood glucose level area under curve (AUC) (CMO:0000350)	1	205233991	267096252	Rat
61341	Bp26	Blood pressure QTL 26			arterial blood pressure trait (VT:2000000)	systolic blood pressure (CMO:0000004)	1	139442053	223964440	Rat
1598853	Memor3	Memory QTL 3	4.5		exploratory behavior trait (VT:0010471)	total horizontal distance resulting from voluntary locomotion in an experimental apparatus (CMO:0001443)	1	152919152	268496042	Rat
1354634	Kidm12	Kidney mass QTL 12	3.9		kidney mass (VT:0002707)	right kidney wet weight (CMO:0000082)	1	160573753	210707719	Rat
4889428	Stresp24	Stress response QTL 24		0.05	heart pumping trait (VT:2000009)	absolute change in electrocardiographic low frequency R-R spectral component to high frequency R-R spectral component ratio (CMO:0002162)	1	165278545	210278545	Rat
1578759	Uae30	Urinary albumin excretion QTL 30	3.3	0.003	urine albumin amount (VT:0002871)	urine albumin excretion rate (CMO:0000757)	1	160111531	262090437	Rat
61343	Bp28	Blood pressure QTL 28			arterial blood pressure trait (VT:2000000)	systolic blood pressure (CMO:0000004)	1	161077990	206077990	Rat
2293693	Bss22	Bone structure and strength QTL 22	33.52	0.0001	femur morphology trait (VT:0000559)	femur cross-sectional area (CMO:0001661)	1	181059071	226059071	Rat
1358902	Bw47	Body weight QTL 47	1.67		body mass (VT:0001259)	body weight (CMO:0000012)	1	99645382	221502378	Rat
2300161	Bmd43	Bone mineral density QTL 43	8.4	0.0001	femur mineral mass (VT:0010011)	volumetric bone mineral density (CMO:0001553)	1	181059071	226059071	Rat
1300145	Rf7	Renal function QTL 7	2.96		urine creatinine amount (VT:0010540)	urine creatinine level (CMO:0000125)	1	194575422	239575422	Rat
61347	Bp197	Blood pressure QTL 197	4.2		arterial blood pressure trait (VT:2000000)	blood pressure measurement (CMO:0000003)	1	168063662	213063662	Rat
8655655	Arrd2	Age-related retinal degeneration QTL 2	7.79		retinal layer morphology trait (VT:0003727)	percentage of study population developing retinopathy during a period of time (CMO:0002453)	1	193400541	238400541	Rat
61348	Bp30	Blood pressure QTL 30	2.4		arterial blood pressure trait (VT:2000000)	systolic blood pressure (CMO:0000004)	1	159894717	207261263	Rat
2303622	Vencon6	Ventilatory control QTL 6		0.001	respiration trait (VT:0001943)	respiration rate (CMO:0000289)	1	163992710	208992710	Rat
1358898	Bp255	Blood pressure QTL 255	3.6		arterial blood pressure trait (VT:2000000)	mean arterial blood pressure (CMO:0000009)	1	200449456	256003563	Rat
631214	Bw61	Body weight QTL61	3.4	0.0001	intramuscular adipose amount (VT:0010044)	intramuscular fat area (CMO:0001162)	1	182535316	227535316	Rat
7771612	Cm80	Cardiac mass QTL 80	8.4		heart left ventricle mass (VT:0007031)	heart left ventricle weight (CMO:0000776)	1	146080545	243492863	Rat
731168	Bp154	Blood pressure QTL 154	3.4		arterial blood pressure trait (VT:2000000)	systolic blood pressure (CMO:0000004)	1	103779152	223964440	Rat
631205	Bp196	Blood pressure QTL 196	4	0.0001	arterial blood pressure trait (VT:2000000)	mean arterial blood pressure (CMO:0000009)	1	98879955	208479939	Rat
2300174	Bmd42	Bone mineral density QTL 42	8.4	0.0001	lumbar vertebra mineral mass (VT:0010511)	bone mineral density (CMO:0001226)	1	181059071	226059071	Rat
737828	Hcas3	Hepatocarcinoma susceptibility QTL 3	4.9		liver integrity trait (VT:0010547)	liver tumorous lesion volume to total liver volume ratio (CMO:0001082)	1	153679879	232414077	Rat
1354661	Bw33	Body weight QTL 33	5.2		body mass (VT:0001259)	body weight (CMO:0000012)	1	160573753	266453731	Rat
1358886	Bp260	Blood pressure QTL 260	3.67		arterial blood pressure trait (VT:2000000)	mean arterial blood pressure (CMO:0000009)	1	160574007	235238518	Rat
2293654	Bss30	Bone structure and strength QTL 30	32.65	0.0001	femur strength trait (VT:0010010)	femur midshaft polar moment of inertia (CMO:0001669)	1	181059071	226059071	Rat
724531	Uae5	Urinary albumin excretion QTL 5	4		urine albumin amount (VT:0002871)	urine albumin level (CMO:0000130)	1	160111426	262090599	Rat
2300187	Bmd41	Bone mineral density QTL 41	8.9	0.0001	femur mineral mass (VT:0010011)	volumetric bone mineral density (CMO:0001553)	1	181059071	226059071	Rat
8552891	Epfw5	Epididymal fat weight QTL 5	4.4		epididymal fat pad mass (VT:0010421)	epididymal fat pad weight to body weight ratio (CMO:0000658)	1	202543537	247543537	Rat
1359018	Hrtrt20	Heart rate QTL 20	3.08		heart pumping trait (VT:2000009)	heart rate (CMO:0000002)	1	194786607	207590403	Rat
1354580	Scort1	Serum corticosterone level QTL 1	3.4		blood corticosterone amount (VT:0005345)	blood corticosterone level (CMO:0001172)	1	154961463	266453731	Rat
70209	Niddm23	Non-insulin dependent diabetes mellitus QTL 23	2.82		blood glucose amount (VT:0000188)	blood glucose level (CMO:0000046)	1	162753891	207753891	Rat
634312	Bp143	Blood pressure QTL 143	3	0.0002	arterial blood pressure trait (VT:2000000)	systolic blood pressure (CMO:0000004)	1	203300512	229359342	Rat
1358294	Bw37	Body weight QTL 37	5	0.000011	body mass (VT:0001259)	body weight (CMO:0000012)	1	180739993	225739993	Rat
61378	Bp43	Blood pressure QTL 43	22.6		arterial blood pressure trait (VT:2000000)	systolic blood pressure (CMO:0000004)	1	191177449	205813246	Rat
634314	Niddm44	Non-insulin dependent diabetes mellitus QTL 44			blood glucose amount (VT:0000188)	blood glucose level (CMO:0000046)	1	51941022	208479811	Rat
724559	Pancm1	Pancreatic morphology QTL 1	7.1		islet of Langerhans morphology trait (VT:0005215)	pancreatic islet damage composite score (CMO:0001156)	1	191190115	223964326	Rat
2312420	Pur17	Proteinuria QTL 17	7.1	0.0001	urine protein amount (VT:0005160)	urine total protein excretion rate (CMO:0000756)	1	172718770	228180370	Rat
10059600	Bp378	Blood pressure QTL 378	3.08	0.05	arterial blood pressure trait (VT:2000000)	systolic blood pressure (CMO:0000004)	1	186298393	231298393	Rat
1354591	Cm36	Cardiac mass QTL 36	4.1		heart left ventricle mass (VT:0007031)	calculated heart weight (CMO:0000073)	1	111949780	210707719	Rat
10059597	Bp377	Blood pressure QTL 377	3.42	0.025	arterial blood pressure trait (VT:2000000)	systolic blood pressure (CMO:0000004)	1	34565911	208798288	Rat
631260	Tcas2	Tongue tumor susceptibility QTL 2	4.93		tongue integrity trait (VT:0010553)	number of squamous cell tumors of the tongue with diameter greater than 3 mm (CMO:0001950)	1	201915593	208479939	Rat
619614	Bp78	Blood pressure QTL 78		0.001	arterial blood pressure trait (VT:2000000)	diastolic blood pressure (CMO:0000005)	1	178547286	206690557	Rat
2312564	Glom18	Glomerulus QTL 18	2.4	0.003	kidney glomerulus morphology trait (VT:0005325)	index of glomerular damage (CMO:0001135)	1	194786607	262083703	Rat
634321	Hc1	Hypercalciuria QTL 1	2.91		urine calcium amount (VT:0002985)	urine calcium excretion rate (CMO:0000763)	1	188241285	250779312	Rat
724562	Rends1	Renal damage susceptibility QTL 1		0.05	kidney glomerulus integrity trait (VT:0010546)	index of glomerular damage (CMO:0001135)	1	139442053	223964440	Rat
1300168	Bp170	Blood pressure QTL 170	2.76		arterial blood pressure trait (VT:2000000)	mean arterial blood pressure (CMO:0000009)	1	192995199	237995199	Rat
61403	Niddm4	Non-insulin dependent diabetes mellitus QTL 4			blood glucose amount (VT:0000188)	plasma glucose level (CMO:0000042)	1	201464383	246464383	Rat
2292222	Bp307	Blood pressure QTL 307	3.06	0.0014	arterial blood pressure trait (VT:2000000)	systolic blood pressure (CMO:0000004)	1	186298393	231298393	Rat
2292220	Bp306	Blood pressure QTL 306	3.47	0.00087	arterial blood pressure trait (VT:2000000)	systolic blood pressure (CMO:0000004)	1	186298393	231298393	Rat
1641926	Teswt2	Testicular weight QTL 2	2.82		testis mass (VT:1000644)	both testes wet weight (CMO:0000175)	1	203675682	248675682	Rat
1354615	Cm32	Cardiac mass QTL 32	5.2		heart left ventricle mass (VT:0007031)	heart left ventricle wet weight (CMO:0000071)	1	111949780	210707719	Rat
1600380	Niddm70	Non-insulin dependent diabetes mellitus QTL 70	3.1	0.0008	blood insulin amount (VT:0001560)	plasma insulin level (CMO:0000342)	1	185979875	230979875	Rat
1354610	Bw34	Body weight QTL 34	4.1		body mass (VT:0001259)	body weight (CMO:0000012)	1	160573753	266453731	Rat
1582206	Kidm33	Kidney mass QTL 33	6.9		kidney mass (VT:0002707)	both kidneys wet weight to body weight ratio (CMO:0000340)	1	197807365	233480676	Rat
1354620	Kidm19	Kidney mass QTL 19	4		kidney mass (VT:0002707)	calculated kidney weight (CMO:0000160)	1	160573753	210707719	Rat
8655855	Arrd3	Age-related retinal degeneration QTL 3	3.07		lens clarity trait (VT:0001304)	cataract incidence/prevalence measurement (CMO:0001585)	1	193400541	238400541	Rat
634338	Hcar4	Hepatocarcinoma resistance QTL 4	4.6		liver integrity trait (VT:0010547)	liver tumorous lesion number to liver area ratio (CMO:0001210)	1	202851915	223964440	Rat
6480783	Insul19	Insulin level QTL 19	4.33		blood insulin amount (VT:0001560)	plasma insulin level (CMO:0000342)	1	203300512	213659238	Rat
1354618	Kidm15	Kidney mass QTL 15	5		kidney mass (VT:0002707)	left kidney wet weight (CMO:0000083)	1	165707719	210707719	Rat
6903303	Scl34	Serum cholesterol QTL 34	2.5	0.0033	blood cholesterol amount (VT:0000180)	plasma total cholesterol level (CMO:0000585)	1	173363824	227535316	Rat
6480780	Insul18	Insulin level QTL 18	4.11		blood insulin amount (VT:0001560)	plasma insulin level (CMO:0000342)	1	203300512	205777982	Rat
2293083	Iddm25	Insulin dependent diabetes mellitus QTL 25	4.18		blood glucose amount (VT:0000188)	blood glucose level (CMO:0000046)	1	191260175	236260175	Rat
1354606	Bp246	Blood pressure QTL 246	3.6		arterial blood pressure trait (VT:2000000)	pulse pressure (CMO:0000292)	1	111949780	228180370	Rat
738032	Hcas5	Hepatocarcinoma susceptibility QTL 5	3.12		liver integrity trait (VT:0010547)	liver tumorous lesion number (CMO:0001068)	1	185857683	270518180	Rat
2325727	Pia41	Pristane induced arthritis QTL 41			joint integrity trait (VT:0010548)	joint inflammation composite score (CMO:0000919)	1	188241285	233241285	Rat
1354602	Bw35	Body weight QTL 35	12.2		body mass (VT:0001259)	body weight (CMO:0000012)	1	160573753	210707719	Rat
631670	Iddm10	Insulin dependent diabetes mellitus QTL 10	1.9		blood glucose amount (VT:0000188)	plasma glucose level (CMO:0000042)	1	183564652	205813246	Rat

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.

Download All Expressed Objects for this Gene

alimentary part of gastrointestinal system	appendage	circulatory system	ectoderm	endocrine system	endoderm	exocrine system	hemolymphoid system	hepatobiliary system	integumental system	mesenchyme	mesoderm	nervous system	renal system	reproductive system	respiratory system
7	9	39	108	71	70	40	20	40	6	173	79	89	39	59	30

Sequence

Nucleotide Sequences


RefSeq Transcripts	NM_001025058	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
GenBank Nucleotide	AC109844	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	BC083907	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	CH473953	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	CK596157	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	JAXUCZ010000001	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles

Ensembl Acc Id:

ENSRNOT00000033074 ⟹ ENSRNOP00000035554

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
mRatBN7.2 Ensembl	1	195,852,172 - 195,863,174 (-)	Ensembl
Rnor_6.0 Ensembl	1	213,523,639 - 213,534,641 (-)	Ensembl

RefSeq Acc Id:

NM_001025058 ⟹ NP_001020229

RefSeq Status:

VALIDATED

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
GRCr8	1	205,281,808 - 205,292,811 (-)	NCBI
mRatBN7.2	1	195,852,171 - 195,863,174 (-)	NCBI
Rnor_6.0	1	213,523,638 - 213,534,641 (-)	NCBI
Rnor_5.0	1	220,418,169 - 220,429,340 (-)	NCBI
RGSC_v3.4	1	200,930,362 - 200,941,365 (-)	RGD
Celera	1	193,496,215 - 193,507,224 (-)	RGD

Sequence:

show sequence

TGTGGCAGCTGAAGAGGTGGAGCAGTATGGCCACCAGACCGCAGCCGTTGAGTGTGGAGCCCGA
GGGATCAGCAGACCTGCTCCACGGGCCTGAGGGGGCCAGAGGGCGGCGTGGATCCACACAGAAA
ATTGAAGACTTAATGGAAATGGTGGAAAAGTTGCAGAAAGTGGGAAGTCTGGAGCCCCGCATTG
AGGTCCTGATTAACCGCATTAATGAGGTTCAGCAAGCAAAAAAGAAAGCCAGTGAGGAGCTTGG
AGAGGCCCAGACTGTGTGGGATACCCTGCAGAAGGAAGTGGACTCATTACACGAAGAGAAAGTA
CGTCTGAAGGATATCTTGAACAGAAAGGAAGAGACCCTGAGGATTATGCAGCTGCACTGTCAGG
AGAAGGAAAGCGAGGCAGAGAGGAAGCACAGCATGTTGCAGGAATGTAAAGACAGAATTTCTTT
CCTGAACAATCAGATCGACAATGAGAAGGCCAAACTAAGACGACTGAGGTTGGATTTTGAAGAA
CATCTGGAGACTTTGATGAGTCAACATAAGGACACCATGGAATTTCATAAGCCTGAACATCTGA
CAGAGGAGATGAGTGTTTTGGACAGCAGCAAGGAGCAGCTGCTCAAGGAAGAGAAACTGATCAA
GGCAAAGCTGGAGGATGTGCAGCATCGGCTGTGTGCCCTGTGTGGGCCCGAGGGTTCTTCCACC
TTCTCTGATGGACTCTTCCTCCGAAGCCATGAGGCAGCTGCAGCAATGCAGATGTTCAAGGATG
AGAACAAGAAAGCCGAGGAGCTCCTTGAGGCTGCAGCGCAGCAGCACCAGCAGCTGCAGCAGAG
GTGCCGCCAGCTGCAGCAGAAGCGGCAGAGGCTGAAAGAAGAGCTGGAAAAGCATGGGGTACAG
ATCCTTGCTCAAATTCAGAGTACGCAAAAGGAAGAGGACAGCTCGTGGAGGACGGCCAGTCCTA
AGCCCTTAGAAGCCCACAAGGAGACAGTCCAAGAGCGCCCATCAAGCAGGACCTAACCTCCTCA
GCCCGGAGGACATACTAGCTCCAAACATCACAAGGGGGTGTTTTGTGTAGCCTGCTTCATCGGA
GTATGTGCTGAGTGGAAGGATGGGTGTTGGTGCCAAGCTCCTCAAGTCTTTGAACCTGGAGATT
TCTTGGCTCAATTTTGATTCTCGACTAGCTTAGGGTCCACACTGCAGGCCCTTAATAAATGCTT
CCCCTGTCCCCTGCTCACCATTAGTATCTGTCACACTCTTCCTACTCTTAGACAGAAGGGTACA
GATCTGGACCTTCTCATAGGATCTGAAGCCACTTTGTAATTTAGTTCCCTCATGTAGGCCCAGT
GTAGCACAGACTTTGAAACAAAAGGAAGATATATCACCAGCTTTTAATTCTTGCTATAAGCCAT
CTCATTCTTCAAGCAAAATAAATGTAATTTGAGTCTGCAAAAAAAAAAAAAAAAAAAAAAAAA

hide sequence

Protein Sequences


Protein RefSeqs	NP_001020229	(Get FASTA)	NCBI Sequence Viewer
GenBank Protein	AAH83907	(Get FASTA)	NCBI Sequence Viewer
	EDM11926	(Get FASTA)	NCBI Sequence Viewer
Ensembl Protein	ENSRNOP00000035554.4
	ENSRNOP00055040785
	ENSRNOP00060039274
	ENSRNOP00065024937
GenBank Protein	Q5XHZ2	(Get FASTA)	NCBI Sequence Viewer

RefSeq Acc Id:

NP_001020229 ⟸ NM_001025058

- UniProtKB:

Q5XHZ2 (UniProtKB/Swiss-Prot), A6HXJ5 (UniProtKB/TrEMBL)

- Sequence:

show sequence

MATRPQPLSVEPEGSADLLHGPEGARGRRGSTQKIEDLMEMVEKLQKVGSLEPRIEVLINRINE
VQQAKKKASEELGEAQTVWDTLQKEVDSLHEEKVRLKDILNRKEETLRIMQLHCQEKESEAERK
HSMLQECKDRISFLNNQIDNEKAKLRRLRLDFEEHLETLMSQHKDTMEFHKPEHLTEEMSVLDS
SKEQLLKEEKLIKAKLEDVQHRLCALCGPEGSSTFSDGLFLRSHEAAAAMQMFKDENKKAEELL
EAAAQQHQQLQQRCRQLQQKRQRLKEELEKHGVQILAQIQSTQKEEDSSWRTASPKPLEAHKET
VQERPSSRT

hide sequence

Ensembl Acc Id:

ENSRNOP00000035554 ⟸ ENSRNOT00000033074

Protein Structures

Name	Modeler	Protein Id	AA Range	Protein Structure
AF-Q5XHZ2-F1-model_v2	AlphaFold	Q5XHZ2	1-329	view protein structure

Transcriptome

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

Promoters

RGD ID:

13690515

Promoter ID:

EPDNEW_R1039

Type:

multiple initiation site

Name:

Syce1_1

Description:

synaptonemal complex central element protein 1

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	1	213,534,655 - 213,534,715	EPDNEW

Additional Information

External Database Links

Database	Acc Id	Source(s)
AGR Gene	RGD:1559853	AgrOrtholog
BioCyc Gene	G2FUF-57014	BioCyc
Ensembl Genes	ENSRNOG00000024073	Ensembl, UniProtKB/Swiss-Prot
	ENSRNOG00055028655	UniProtKB/Swiss-Prot
	ENSRNOG00060027211	UniProtKB/Swiss-Prot
	ENSRNOG00065018642	UniProtKB/Swiss-Prot
Ensembl Transcript	ENSRNOT00000033074.5	UniProtKB/Swiss-Prot
	ENSRNOT00055049581	UniProtKB/Swiss-Prot
	ENSRNOT00060047202	UniProtKB/Swiss-Prot
	ENSRNOT00065031305	UniProtKB/Swiss-Prot
Gene3D-CATH	1.10.287.1490	UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
IMAGE_CLONE	IMAGE:7134037	IMAGE-MGC_LOAD
InterPro	SYCE1	UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
KEGG Report	rno:502372	UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
MGC_CLONE	MGC:95271	IMAGE-MGC_LOAD
NCBI Gene	502372	ENTREZGENE
PANTHER	PTHR21731	UniProtKB/Swiss-Prot
	SYNAPTONEMAL COMPLEX CENTRAL ELEMENT PROTEIN 1	UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
	UNCHARACTERIZED	UniProtKB/TrEMBL
Pfam	SYCE1	UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PhenoGen	Syce1	PhenoGen
RatGTEx	ENSRNOG00000024073	RatGTEx
	ENSRNOG00055028655	RatGTEx
	ENSRNOG00060027211	RatGTEx
	ENSRNOG00065018642	RatGTEx
UniProt	A6HXJ5	ENTREZGENE, UniProtKB/TrEMBL
	Q5XHZ2	ENTREZGENE, UniProtKB/Swiss-Prot

Nomenclature History

Date	Current Symbol	Current Name	Previous Symbol	Previous Name	Description	Reference	Status
2010-04-21	Syce1	synaptonemal complex central element protein 1	LOC502372	hypothetical protein LOC502372	Nomenclature updated to reflect human and mouse nomenclature	1299863	APPROVED
2006-02-09	LOC502372	hypothetical protein LOC502372			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)

Imported Disease Annotations - ClinVar

Imported Disease Annotations - MGI

Imported Disease Annotations - OMIM

Send us a Message

Imported Disease Annotations - ClinVar

Imported Disease Annotations - MGI

Imported Disease Annotations - OMIM