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Gene: Ccnyl1 (cyclin Y-like 1) Rattus norvegicus

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Symbol:

Ccnyl1

Name:

cyclin Y-like 1

RGD ID:

1310683

Description:

Predicted to enable protein kinase binding activity. Predicted to be involved in neurogenesis and regulation of canonical Wnt signaling pathway. Predicted to act upstream of or within flagellated sperm motility and spermatogenesis. Predicted to be located in membrane. Predicted to be active in plasma membrane. Orthologous to several human genes including CCNYL1 (cyclin Y like 1); INTERACTS WITH 2,3,7,8-tetrachlorodibenzodioxine; 6-propyl-2-thiouracil; amitrole.

Type:

protein-coding

RefSeq Status:

MODEL

Previously known as:

cyclin-Y-like protein 1; LOC316452; RGD1310683; similar to hypothetical protein FLJ40432

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):	CCNYL1 (cyclin Y like 1)	HGNC	Ensembl, HomoloGene, Inparanoid, NCBI, OMA, OrthoDB, Panther, Treefam
Mus musculus (house mouse):	Ccnyl1 (cyclin Y-like 1)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Chinchilla lanigera (long-tailed chinchilla):	Ccnyl1 (cyclin Y like 1)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Pan paniscus (bonobo/pygmy chimpanzee):	CCNYL1 (cyclin Y like 1)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Canis lupus familiaris (dog):	CCNYL1 (cyclin Y like 1)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Ictidomys tridecemlineatus (thirteen-lined ground squirrel):	Ccnyl1 (cyclin Y like 1)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Sus scrofa (pig):	CCNYL1 (cyclin Y like 1)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Chlorocebus sabaeus (green monkey):	CCNYL1 (cyclin Y like 1)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Heterocephalus glaber (naked mole-rat):	Ccnyl1 (cyclin Y like 1)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Rattus rattus (black rat):	Ccnyl1 (cyclin Y like 1)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Other homologs ²
Homo sapiens (human):	CCNYL2 (cyclin Y like 2 (pseudogene))	HGNC	Panther
Homo sapiens (human):	CCNYL3 (cyclin Y like 3 (pseudogene))	HGNC	Panther
Homo sapiens (human):	CCNYL1B (cyclin Y like 1B)	HGNC	Ensembl
Alliance orthologs ³
Mus musculus (house mouse):	Ccnyl1 (cyclin Y-like 1)	Alliance	DIOPT (Ensembl Compara\|Hieranoid\|InParanoid\|OMA\|OrthoFinder\|OrthoInspector\|PANTHER\|PhylomeDB\|SonicParanoid)
Homo sapiens (human):	CCNYL2 (cyclin Y like 2 (pseudogene))	Alliance	DIOPT (OrthoFinder\|PANTHER\|PhylomeDB)
Homo sapiens (human):	CCNYL1 (cyclin Y like 1)	Alliance	DIOPT (Ensembl Compara\|HGNC\|Hieranoid\|InParanoid\|OMA\|OrthoFinder\|OrthoInspector\|PANTHER\|SonicParanoid)
Homo sapiens (human):	CCNYL3 (cyclin Y like 3 (pseudogene))	Alliance	DIOPT (OrthoFinder\|PANTHER\|PhylomeDB)
Danio rerio (zebrafish):	ccnyl1 (cyclin Y-like 1)	Alliance	DIOPT (Ensembl Compara\|Hieranoid\|InParanoid\|OMA\|OrthoFinder\|OrthoInspector\|PANTHER\|PhylomeDB\|SonicParanoid)
Danio rerio (zebrafish):	ccnyl1 (cyclin Y-like 1)	Alliance	DIOPT (Ensembl Compara\|Hieranoid\|InParanoid\|OMA\|OrthoFinder\|OrthoInspector\|PANTHER\|SonicParanoid)
Drosophila melanogaster (fruit fly):	CycY	Alliance	DIOPT (Ensembl Compara\|Hieranoid\|InParanoid\|OrthoFinder\|OrthoInspector\|PANTHER\|SonicParanoid)
Caenorhabditis elegans (roundworm):	cyy-1	Alliance	DIOPT (Ensembl Compara\|Hieranoid\|InParanoid\|OMA\|OrthoFinder\|OrthoInspector\|PANTHER\|PhylomeDB\|SonicParanoid)
Caenorhabditis elegans (roundworm):	cyy-1	Alliance	DIOPT (Ensembl Compara\|Hieranoid\|InParanoid\|OMA\|OrthoFinder\|OrthoInspector\|PANTHER\|SonicParanoid)
Saccharomyces cerevisiae (baker's yeast):	SIP3	Alliance	DIOPT (Ensembl Compara\|PANTHER)
Saccharomyces cerevisiae (baker's yeast):	LAM1	Alliance	DIOPT (Ensembl Compara\|PANTHER)
Xenopus tropicalis (tropical clawed frog):	ccnyl1	Alliance	DIOPT (Ensembl Compara\|Hieranoid\|InParanoid\|OMA\|OrthoFinder\|OrthoInspector\|PANTHER\|PhylomeDB\|SonicParanoid)
Xenopus tropicalis (tropical clawed frog):	ccnyl1	Alliance	DIOPT (Ensembl Compara\|Hieranoid\|InParanoid\|OMA\|OrthoFinder\|OrthoInspector\|PANTHER\|SonicParanoid)

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	9	73,565,484 - 73,601,926 (+)	NCBI	GRCr8	GRCr8		GRCr8
GRCr8 Ensembl	9	73,565,402 - 73,601,922 (+)	Ensembl				GRCr8
mRatBN7.2	9	66,071,721 - 66,121,742 (+)	NCBI	mRatBN7.2	mRatBN7.2
mRatBN7.2 Ensembl	9	66,071,543 - 66,107,999 (+)	Ensembl				mRatBN7.2
Rnor_6.0	9	71,398,186 - 71,434,581 (+)	NCBI	Rnor_6.0	Rnor_6.0	rn6	Rnor6.0
Rnor_6.0 Ensembl	9	71,398,710 - 71,434,493 (+)	Ensembl			rn6	Rnor6.0
Rnor_5.0	9	71,145,230 - 71,177,840 (-)	NCBI	Rnor_5.0	Rnor_5.0	rn5
RGSC_v3.4	9	63,316,278 - 63,377,369 (+)	NCBI	RGSC_v3.4	RGSC_v3.4	rn4
Celera	9	63,476,952 - 63,513,381 (+)	NCBI		Celera
RGSC_v3.1	9	63,498,495 - 63,522,320 (+)	NCBI
Cytogenetic Map	9	q32	NCBI

JBrowse:

View Region in Genome Browser (JBrowse)

Annotation Click to see Annotation Detail View

Gene-Chemical Interaction Annotations Click to see Annotation Detail View

1,2-dichloroethane (ISO)

1,2-dimethylhydrazine (ISO)

17beta-estradiol (ISO)

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

2-hydroxypropanoic acid (ISO)

4,4'-sulfonyldiphenol (ISO)

6-propyl-2-thiouracil (EXP)

acrolein (ISO)

all-trans-retinoic acid (ISO)

alpha-pinene (ISO)

amitrole (EXP)

bisphenol A (EXP)

cadmium atom (ISO)

caffeine (ISO)

carbon nanotube (ISO)

chlormequat chloride (EXP)

cyclosporin A (ISO)

Dibutyl phosphate (ISO)

dibutyl phthalate (EXP,ISO)

dioxygen (ISO)

dorsomorphin (ISO)

endosulfan (EXP)

epoxiconazole (ISO)

folic acid (ISO)

FR900359 (ISO)

hydrogen peroxide (ISO)

hydroquinone O-beta-D-glucopyranoside (ISO)

methimazole (EXP)

methylparaben (ISO)

nickel atom (ISO)

okadaic acid (ISO)

ozone (ISO)

paracetamol (EXP,ISO)

phenobarbital (ISO)

phenylmercury acetate (ISO)

rac-lactic acid (ISO)

rotenone (ISO)

SB 431542 (ISO)

sulfadimethoxine (EXP)

sulforaphane (ISO)

tetrachloromethane (ISO)

thioacetamide (EXP)

titanium dioxide (ISO)

trichostatin A (ISO)

tunicamycin (ISO)

urethane (ISO)

valproic acid (ISO)

Gene Ontology Annotations Click to see Annotation Detail View

Biological Process

flagellated sperm motility (ISO)

neurogenesis (IEA,ISO)

regulation of canonical Wnt signaling pathway (IBA,IEA,ISO)

regulation of protein kinase activity (ISO)

regulation of protein phosphorylation (ISO)

spermatogenesis (ISO)

Wnt signaling pathway (IEA)

Cellular Component

membrane (IEA,ISO)

plasma membrane (IBA,IEA,ISO)

Molecular Function

cyclin-dependent protein serine/threonine kinase activator activity (IBA)

protein binding (ISO)

protein kinase binding (IEA)

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.	GOA pipeline	RGD automated data pipeline
3.	Data Import for Chemical-Gene Interactions	RGD automated import pipeline for gene-chemical interactions

Additional References at PubMed

PMID:26305884	PMID:26590424

Genomics

Comparative Map Data

Ccnyl1
(Rattus norvegicus - Norway rat)

Rat Assembly	Chr	Position (strand)	Source	Genome Browsers
Rat Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCr8	9	73,565,484 - 73,601,926 (+)	NCBI	GRCr8	GRCr8		GRCr8
GRCr8 Ensembl	9	73,565,402 - 73,601,922 (+)	Ensembl				GRCr8
mRatBN7.2	9	66,071,721 - 66,121,742 (+)	NCBI	mRatBN7.2	mRatBN7.2
mRatBN7.2 Ensembl	9	66,071,543 - 66,107,999 (+)	Ensembl				mRatBN7.2
Rnor_6.0	9	71,398,186 - 71,434,581 (+)	NCBI	Rnor_6.0	Rnor_6.0	rn6	Rnor6.0
Rnor_6.0 Ensembl	9	71,398,710 - 71,434,493 (+)	Ensembl			rn6	Rnor6.0
Rnor_5.0	9	71,145,230 - 71,177,840 (-)	NCBI	Rnor_5.0	Rnor_5.0	rn5
RGSC_v3.4	9	63,316,278 - 63,377,369 (+)	NCBI	RGSC_v3.4	RGSC_v3.4	rn4
Celera	9	63,476,952 - 63,513,381 (+)	NCBI		Celera
RGSC_v3.1	9	63,498,495 - 63,522,320 (+)	NCBI
Cytogenetic Map	9	q32	NCBI

CCNYL1
(Homo sapiens - human)

Human Assembly	Chr	Position (strand)	Source	Genome Browsers
Human Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCh38	2	207,711,640 - 207,756,174 (+)	NCBI	GRCh38	GRCh38	hg38	GRCh38
GRCh38.p14 Ensembl	2	207,711,524 - 207,761,839 (+)	Ensembl			hg38	GRCh38
GRCh37	2	208,576,364 - 208,620,898 (+)	NCBI	GRCh37	GRCh37	hg19	GRCh37
Build 36	2	208,284,509 - 208,327,434 (+)	NCBI	Build 36	Build 36	hg18	NCBI36
Celera	2	202,338,006 - 202,382,779 (+)	NCBI		Celera
Cytogenetic Map	2	q33.3	NCBI
HuRef	2	200,418,315 - 200,463,088 (+)	NCBI		HuRef
CHM1_1	2	208,582,167 - 208,626,812 (+)	NCBI		CHM1_1
T2T-CHM13v2.0	2	208,185,841 - 208,230,386 (+)	NCBI		T2T-CHM13v2.0

Ccnyl1
(Mus musculus - house mouse)

Mouse Assembly	Chr	Position (strand)	Source	Genome Browsers
Mouse Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCm39	1	64,729,963 - 64,764,805 (+)	NCBI	GRCm39	GRCm39	mm39
GRCm39 Ensembl	1	64,729,614 - 64,764,803 (+)	Ensembl		GRCm39 Ensembl		GRCm39
GRCm38	1	64,691,041 - 64,725,646 (+)	NCBI	GRCm38	GRCm38	mm10	GRCm38
GRCm38.p6 Ensembl	1	64,690,455 - 64,725,644 (+)	Ensembl			mm10	GRCm38
MGSCv37	1	64,737,919 - 64,772,218 (+)	NCBI	MGSCv37	MGSCv37	mm9	NCBIm37
MGSCv36	1	64,623,400 - 64,658,217 (+)	NCBI		MGSCv36	mm8
Celera	1	65,192,919 - 65,227,300 (+)	NCBI		Celera
Cytogenetic Map	1	C2	NCBI
cM Map	1	32.74	NCBI

Ccnyl1
(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_004955457	7,294,696 - 7,328,773 (-)	Ensembl
ChiLan1.0	NW_004955457	7,295,884 - 7,328,690 (-)	NCBI	ChiLan1.0	ChiLan1.0

CCNYL1
(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	13	110,319,806 - 110,370,867 (+)	NCBI		NHGRI_mPanPan1-v2
NHGRI_mPanPan1	2B	110,336,559 - 110,386,737 (+)	NCBI		NHGRI_mPanPan1
Mhudiblu_PPA_v0	2B	94,947,540 - 94,996,820 (+)	NCBI	Mhudiblu_PPA_v0	Mhudiblu_PPA_v0	panPan3
PanPan1.1	2B	213,073,689 - 213,122,423 (+)	NCBI	PanPan1.1	PanPan1.1	panPan2
PanPan1.1 Ensembl	2B	213,073,689 - 213,122,423 (+)	Ensembl			panPan2	panpan1.1

CCNYL1
(Canis lupus familiaris - dog)

Dog Assembly	Chr	Position (strand)	Source	Genome Browsers
Dog Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
CanFam3.1	37	16,075,459 - 16,113,583 (+)	NCBI	CanFam3.1	CanFam3.1	canFam3	CanFam3.1
CanFam3.1 Ensembl	37	16,075,372 - 16,110,926 (+)	Ensembl			canFam3	CanFam3.1
Dog10K_Boxer_Tasha	37	16,958,908 - 16,997,042 (+)	NCBI	Dog10K_Boxer_Tasha	Dog10K_Boxer_Tasha
ROS_Cfam_1.0	37	16,010,480 - 16,048,609 (+)	NCBI	ROS_Cfam_1.0	ROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl	37	16,010,519 - 16,047,305 (+)	Ensembl				ROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.1	37	15,956,302 - 15,994,435 (+)	NCBI		UMICH_Zoey_3.1
UNSW_CanFamBas_1.0	37	15,929,416 - 15,967,509 (+)	NCBI		UNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0	37	15,938,661 - 15,976,790 (+)	NCBI	UU_Cfam_GSD_1.0	UU_Cfam_GSD_1.0

Ccnyl1
(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_024405303	164,238,898 - 164,267,810 (+)	NCBI		HiC_Itri_2
SpeTri2.0 Ensembl	NW_004936631	3,867,407 - 3,904,997 (+)	Ensembl		SpeTri2.0 Ensembl
SpeTri2.0	NW_004936631	3,867,403 - 3,905,423 (+)	NCBI	SpeTri2.0	SpeTri2.0		SpeTri2.0

CCNYL1
(Sus scrofa - pig)

Pig Assembly	Chr	Position (strand)	Source	Genome Browsers
Pig Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
Sscrofa11.1 Ensembl	15	110,874,211 - 110,910,887 (+)	Ensembl			susScr11	Sscrofa11.1
Sscrofa11.1	15	110,873,912 - 110,910,929 (+)	NCBI	Sscrofa11.1	Sscrofa11.1	susScr11	Sscrofa11.1
Sscrofa10.2	15	122,437,117 - 122,471,427 (-)	NCBI	Sscrofa10.2	Sscrofa10.2	susScr3

CCNYL1
(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	10	93,493,768 - 93,537,048 (+)	NCBI	ChlSab1.1	ChlSab1.1	chlSab2
ChlSab1.1 Ensembl	10	93,493,742 - 93,536,267 (+)	Ensembl		ChlSab1.1 Ensembl	chlSab2	Vervet-AGM
Vero_WHO_p1.0	NW_023666040	105,833,261 - 105,876,820 (-)	NCBI	Vero_WHO_p1.0	Vero_WHO_p1.0

Ccnyl1
(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 1.0	NW_004624765	8,235,205 - 8,276,024 (-)	NCBI	HetGla 1.0	HetGla 1.0	hetGla2

Ccnyl1
(Rattus rattus - black rat)

Black Rat Assembly	Chr	Position (strand)	Source	Genome Browsers
Black Rat Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
Rrattus_CSIRO_v1	4	138,574,824 - 138,610,452 (+)	NCBI		Rrattus_CSIRO_v1

Variants

Variants in Ccnyl1
362 total Variants

miRNA Target Status (No longer updated)

Predicted Target Of

	Summary Value
Count of predictions:	17
Count of miRNA genes:	17
Interacting mature miRNAs:	17
Transcripts:	ENSRNOT00000049411
Prediction methods:	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
2303170	Bp332	Blood pressure QTL 332	3.73	0.027	arterial blood pressure trait (VT:2000000)	mean arterial blood pressure (CMO:0000009)	9	6714888	84474983	Rat
631656	Bp108	Blood pressure QTL 108	5.97	0.0001	arterial blood pressure trait (VT:2000000)	systolic blood pressure (CMO:0000004)	9	56047863	101047863	Rat
7411571	Bw138	Body weight QTL 138	14.3	0.001	body mass (VT:0001259)	body weight gain (CMO:0000420)	9	40029925	85029925	Rat
1582203	Gluco19	Glucose level QTL 19	3.3	0.001	blood glucose amount (VT:0000188)	blood glucose level (CMO:0000046)	9	63376862	108376862	Rat
724515	Uae16	Urinary albumin excretion QTL 16	8		urine albumin amount (VT:0002871)	urine albumin excretion rate (CMO:0000757)	9	65657365	108376720	Rat
8662828	Vetf6	Vascular elastic tissue fragility QTL 6	3.9		artery integrity trait (VT:0010639)	patent ductus arteriosus score (CMO:0002566)	9	44458256	99506504	Rat
61450	Ciaa3	CIA Autoantibody QTL 3	6.5		blood autoantibody amount (VT:0003725)	calculated serum anti-type 2 collagen antibody titer (CMO:0001279)	9	29567664	74567664	Rat
1598834	Memor11	Memory QTL 11	2.5		exploratory behavior trait (VT:0010471)	average horizontal distance between subject and target during voluntary locomotion in an experimental apparatus (CMO:0002674)	9	44458256	85262605	Rat
70186	Niddm26	Non-insulin dependent diabetes mellitus QTL 26	3.87		blood glucose amount (VT:0000188)	blood glucose level area under curve (AUC) (CMO:0000350)	9	29567664	83835942	Rat
70218	Cm28	Cardiac mass QTL 28	8.3	0.0001	heart mass (VT:0007028)	heart wet weight (CMO:0000069)	9	41720295	86720295	Rat
724544	Uae9	Urinary albumin excretion QTL 9	4.5		urine albumin amount (VT:0002871)	urine albumin level (CMO:0000130)	9	64220169	109220169	Rat
1578760	Cm53	Cardiac mass QTL 53	3.3	0.0001	heart mass (VT:0007028)	heart wet weight (CMO:0000069)	9	64220169	109220169	Rat
2290450	Scl57	Serum cholesterol level QTL 57	4.15		blood cholesterol amount (VT:0000180)	plasma total cholesterol level (CMO:0000585)	9	44458256	121768150	Rat
1581580	Uae34	Urinary albumin excretion QTL 34			urine albumin amount (VT:0002871)	urine albumin excretion rate (CMO:0000757)	9	64220169	109220169	Rat
1581517	Bp284	Blood pressure QTL 284			arterial blood pressure trait (VT:2000000)	systolic blood pressure (CMO:0000004)	9	39220186	84220186	Rat
1300134	Bp185	Blood pressure QTL 185	3.73		arterial blood pressure trait (VT:2000000)	mean arterial blood pressure (CMO:0000009)	9	68875497	121768150	Rat
731164	Uae25	Urinary albumin excretion QTL 25	3.5	0.0001	urine albumin amount (VT:0002871)	urine albumin excretion rate (CMO:0000757)	9	48718864	108376862	Rat
1598849	Memor17	Memory QTL 17	2.2		exploratory behavior trait (VT:0010471)	difference between duration of physical contact or close proximity of test subject and social stimulus during sample phase and test phase (CMO:0002678)	9	57460497	78547958	Rat
7411656	Foco26	Food consumption QTL 26	9.8	0.001	eating behavior trait (VT:0001431)	feed conversion ratio (CMO:0001312)	9	40029925	85029925	Rat
1578757	Pur6	Proteinuria QTL 6	3.3	0.005	urine total protein amount (VT:0000032)	urine total protein excretion rate (CMO:0000756)	9	64220169	109220169	Rat
4889943	Bss90	Bone structure and strength QTL 90	4.1		tibia area (VT:1000281)	tibia-fibula cortical bone endosteal cross-sectional area (CMO:0001722)	9	54506504	99506504	Rat
1641894	Alcrsp12	Alcohol response QTL 12			response to alcohol trait (VT:0010489)	brain neurotensin receptor 1 density (CMO:0002068)	9	34960590	79960590	Rat

Markers in Region

RH138746

Rat Assembly	Chr	Position (strand)	Source	JBrowse
mRatBN7.2	9	66,107,789 - 66,107,950 (+)	MAPPER	mRatBN7.2
Rnor_6.0	9	71,434,205 - 71,434,365	NCBI	Rnor6.0
Rnor_5.0	9	71,131,444 - 71,131,597	NCBI	Rnor5.0
RGSC_v3.4	9	63,376,993 - 63,377,153	UniSTS	RGSC3.4
Celera	9	63,513,005 - 63,513,165	UniSTS
RH 3.4 Map	9	537.6	UniSTS
Cytogenetic Map	9	q32	UniSTS

UniSTS:234144

Rat Assembly	Chr	Position (strand)	Source	JBrowse
mRatBN7.2	9	66,106,551 - 66,106,655 (+)	MAPPER	mRatBN7.2
Rnor_6.0	9	71,432,967 - 71,433,070	NCBI	Rnor6.0
RGSC_v3.4	9	63,375,754 - 63,375,857	UniSTS	RGSC3.4
Celera	9	63,511,767 - 63,511,870	UniSTS
Cytogenetic Map	9	q32	UniSTS

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	musculoskeletal system	nervous system	renal system	reproductive system	respiratory system	sensory system	visual system
16	12	67	163	91	90	59	92	59	6	356	192	11	142	81	92	31	17	17

Sequence

Nucleotide Sequences


RefSeq Transcripts	XM_006226869	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	XM_008767164	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	XM_008767165	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	XM_008767166	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	XM_008767167	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	XM_063267898	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
GenBank Nucleotide	AC111319	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	CH473965	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	JAXUCZ010000009	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles

Ensembl Acc Id:

ENSRNOT00000049411 ⟹ ENSRNOP00000047323

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
GRCr8 Ensembl	9	73,566,062 - 73,601,922 (+)	Ensembl
mRatBN7.2 Ensembl	9	66,071,543 - 66,107,999 (+)	Ensembl
Rnor_6.0 Ensembl	9	71,398,710 - 71,434,493 (+)	Ensembl

Ensembl Acc Id:

ENSRNOT00000107904 ⟹ ENSRNOP00000082307

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
GRCr8 Ensembl	9	73,565,403 - 73,600,901 (+)	Ensembl
mRatBN7.2 Ensembl	9	66,071,543 - 66,107,999 (+)	Ensembl

Ensembl Acc Id:

ENSRNOT00000165139 ⟹ ENSRNOP00000111658

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
GRCr8 Ensembl	9	73,565,402 - 73,600,363 (+)	Ensembl

RefSeq Acc Id:

XM_008767164 ⟹ XP_008765386

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
GRCr8	9	73,565,484 - 73,601,926 (+)	NCBI
mRatBN7.2	9	66,071,722 - 66,108,166 (+)	NCBI
Rnor_6.0	9	71,398,186 - 71,434,581 (+)	NCBI

Sequence:

show sequence

CTGCCAAGCTGGAGCCCAACTCCGCTCAGCTCGCGATGAATGGAAATCAGAGTCCGCGCGGCTC
AGCTTGAGGGACGGGGAGGGGCTTTCCCCAAGCTGGGCCGGCGCGCGGGACCGGCAGAGCCCGA
CTACGAGTCCGAGGTCTACGAGGCGGCGGCCGGGGACGCGGTGGCCGTAGCGCCGGCGCCTGCT
GCGGCCGTGGAGCCGGCTGAGTTGGATTTCGGAGCCGGCGAGGGCCACCACCTGCAGCACATCA
GCGACCGAGAGATGCCCGAAGATCTAGCTTTGGAATCAAACCCTTCCGACCACCCGAGGGCAAG
CACAATTTTCCTCAGCAAATCTCAAACGGATGTGCGTGAAAAGAGGAAGAGCAACCATTTAAAC
CATGTATCTCCAGGGCAGCTTACTAAAAAGTATAGCTCATGCTCAACAATATTTCTAGATGACA
GCACAGTCAGCCAGCCTAACCTTAGAACCACAATAAAATGTGTGACCTTAGCAATATATTACCA
CATAAAGAACAGAGATGCAAATAGATCCCTAGACATTTTTGATGAGCGGTCACATCCTCTCACA
AGAGAGAAAGTTCCAGAGGAGTACTTTAAGCATGATCCTGAACACAAATTTATTTACAGATTTG
TTCGCACACTCTTTAGTGCTGCACAGCTGACAGCGGAATGTGCAATAGTGACATTGGTTTACTT
AGAGAGGCTCCTAACTTATGCTGAGATCGACATTTGTCCAACCAACTGGAAAAGAATTGTTTTG
GGAGCCATTCTTCTTGCCTCCAAGGTTTGGGATGATCAGGCTGTATGGAATGTAGACTATTGCC
AGATCCTCAAGGACATTACAGTTGAGGACATGAATGAGATGGAAAGGCATTTCTTGGAGCTACT
CCAGTTTAATATTAATGTTCCTGCCAGTGTTTATGCCAAATACTACTTTGACCTTCGCTCCTTA
GCAGATGACAACAACCTGAATTTTCTGTTTGCTCCTCTCAGCAAAGAGCGAGCACAGAACCTAG
AGGCCATTTCAAGATTGTGTGAAGACAAATACAAAGACTTGTGTAGAGCTGCTATGAGAAGATC
TTTAAGCGCTGATAATTTCATTGGTATTCAGCGCTCTAATGCCATCCTCTCTTAAGAGAGAGAC
TTGAGGAGTGAGAACACCAGGGACTCCTCTGACAGACTGGAGAAACAGCACCTCTCCTGATCAG
AGACCAGCAGAGGTGAGACTCCACAGAATGGGAAGACCTTGGATGCAAGAGACTCTGGACAGTG
ACTGCTGACTCCATAGGAAAGAATGGGACCTTGTCAAAGCAACAGCTCTCTGTCCTTTGTACTG
TAAACCACTCCACAGCAAAAGCGCTGACCACACAGATAGTGCTTACCATGTAGGCTGATGGCTG
TGAAATAGGTGAGGTTTTTAAATTGTTTCAATTTTTAGACTTTTGTTTGAGACAGGGTCTTACA
TAGCCTGGGCTGGCCTCAAAGTCAGTATATGATTGAGGCTGTCCTTGAACTCCTATCTTCCTGC
CTCTACCTCCCAAATGCTGGGATTACCATGCCTGGCTCAAATTTTTAGACTTTAAAGACACTAA
CCATATAACTTTCGTTTTTCTGGTTTTTCTTGCCCCTGCCCCACCCAACTGCTGCATATGCTTT
TAGAATTGATACATTTCAGTATTACCATTAAAACATGAGAATCCTTCCCCATTTTTGTGGTGCT
GGGAATCAAACTGAAGACCTAGCATGTGCTTGGTGAATATGTGACCACTTAGCTATACTCCTCA
GCCCCAAATATGGGATTCTTAACACTCGTGAAACCACCTAGGAGCGGATTGTGGCATCATTAGG
TATTAAAGGCTTGCCTGCCCACTGAATCGTCAGAGCTGCTAGTCATTACTGGCCATCAGGTTAA
GTTACCAGAAAGCTGCTGGAAACACTCGCCATTCGTGTTGTTTGCAAGTGCTGCCCGCTAGCGT
TTTTGGTATGTTTGGAGCCATAAGAGAAAAGTATCCGCTGTTGACTACTTCTGTTGTGTCCACG
CTGCATTCCTGTGAACTATTAATGGTGCTTCTCGTTTTCCGATTACTTTTCTCTTATTTGTTAA
ACAAGTGTATTAAAAAATGTTTTCATAATGCCAAACAACATAGCGGATCAGTGATCATGATCAA
ATAGTAAAAGTACAAAGTGTCCCTAAAATTAGTGATTGCTTCACACTTACTGTCCTATGGTCTC
TCTGGGGACACTGCAACAGAAGCATAAAAGCCACAAACTTTCACAAAACATCTCTTGAAAGTTT
TAATTTTACTGATTTGAAGTAATTAATTTTTTGTTTCTCAAAGATTGTAAACATAACCAAAAAT
ATTACAAATTTGGAGGATTAAGTTGAAAAGAAAGGTAACATCAAACTTTTAGACAGTGTTTCAT
TAGTTTTGTAGCATTTACGGTTCTACGGGTGTCAGGGCTTACAACCGCATTGAGACTTGGGGGC
TGTCCTGTCTTTCCATGGAGCCACTCCTATTTTCACGGAGTTCTTTGCCAGGCTGGGCTCTCAC
TGCTTTGATCACCTAAGTGTCTTTACACTCAGTTAAGGGAGGCTATGAAAAGCTGTGTTAACTC
ACATGTAACAAATCACAAGGAATCGGAACCTCAAACAGCAGGTGAAATAAATGAGCAATTAAAA
CAATATCCTGCCTGCTCCCTTGGGCGCAGGCGTCTCGCTCACACTGCATCCTTGGCAGCCCTAA
GCACAGGTTTTAAAGGGCAGGGAGCAAAGACTGGGAAAGTGATGGTGGCAGCAGCTAAATCTGA
AATAATAAAAGACTTGCATCCTACAACTGTGCATTCTATTTCTTCTCACATCGAACCTTGGGGA
TCTTACCTGTAAACAAGACTTTTGTGGGCCAAGAATACTCTCTCTTGAGGCTGCAATGCTTCAG
TGCTCGTAAGTGCTCATGTTTTTAAAGGACAGACAGAAGTGTTAAGGAAGGATGTATGGAATAT
TACAATCTACCACCTCAACAACATTGTTTATGGAGTTCAGAGCTTAGAGATTCAAGTATTGATT
GCAGTTTTATTTTGAAAAGAATGCTACAACCTAACGTGGTTTTTCTTTCTCATGTTTATATTAA
AAGAAAAGCTAATAAATTCTATTTTAATTAAAATATG

hide sequence

RefSeq Acc Id:

XM_063267898 ⟹ XP_063123968

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
GRCr8	9	73,566,119 - 73,601,926 (+)	NCBI

Protein Sequences


Protein RefSeqs	XP_008765386	(Get FASTA)	NCBI Sequence Viewer
	XP_063123968	(Get FASTA)	NCBI Sequence Viewer
GenBank Protein	EDL98876	(Get FASTA)	NCBI Sequence Viewer
Ensembl Protein	ENSRNOP00000047323
	ENSRNOP00000047323.5
	ENSRNOP00000082307.2
	ENSRNOP00000111658.1

RefSeq Acc Id:	XP_008765386 ⟸ XM_008767164
- Peptide Label:	isoform X1
- UniProtKB:	A0A8I5ZUQ3 (UniProtKB/TrEMBL)
- Sequence:	show sequence MEIRVRAAQLEGRGGAFPKLGRRAGPAEPDYESEVYEAAAGDAVAVAPAPAAAVEPAELDFGAG EGHHLQHISDREMPEDLALESNPSDHPRASTIFLSKSQTDVREKRKSNHLNHVSPGQLTKKYSS CSTIFLDDSTVSQPNLRTTIKCVTLAIYYHIKNRDANRSLDIFDERSHPLTREKVPEEYFKHDP EHKFIYRFVRTLFSAAQLTAECAIVTLVYLERLLTYAEIDICPTNWKRIVLGAILLASKVWDDQ AVWNVDYCQILKDITVEDMNEMERHFLELLQFNINVPASVYAKYYFDLRSLADDNNLNFLFAPL SKERAQNLEAISRLCEDKYKDLCRAAMRRSLSADNFIGIQRSNAILS hide sequence

Ensembl Acc Id:

ENSRNOP00000047323 ⟸ ENSRNOT00000049411

Ensembl Acc Id:

ENSRNOP00000082307 ⟸ ENSRNOT00000107904

RefSeq Acc Id:	XP_063123968 ⟸ XM_063267898
- Peptide Label:	isoform X2
- UniProtKB:	A0A8I5ZUQ3 (UniProtKB/TrEMBL)

Ensembl Acc Id:

ENSRNOP00000111658 ⟸ ENSRNOT00000165139

Protein Domains

Cyclin-like

Protein Structures

Name	Modeler	Protein Id	AA Range	Protein Structure
AF-F1M4U0-F1-model_v2	AlphaFold	F1M4U0	1-364	view protein structure

Transcriptome

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

Promoters

RGD ID:

13696716

Promoter ID:

EPDNEW_R7240

Type:

single initiation site

Name:

Ccnyl1_1

Description:

cyclin Y-like 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	9	71,398,620 - 71,398,680	EPDNEW

Additional Information

External Database Links

Database	Acc Id	Source(s)
AGR Gene	RGD:1310683	AgrOrtholog
BioCyc Gene	G2FUF-27315	BioCyc
Ensembl Genes	ENSRNOG00000023807	Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript	ENSRNOT00000049411	ENTREZGENE
	ENSRNOT00000049411.7	UniProtKB/TrEMBL
	ENSRNOT00000107904.2	UniProtKB/TrEMBL
	ENSRNOT00000165139.1	UniProtKB/TrEMBL
Gene3D-CATH	Cyclin-like	UniProtKB/TrEMBL
InterPro	Cyclin-like	UniProtKB/TrEMBL
	Cyclin-like_sf	UniProtKB/TrEMBL
	Cyclin_N	UniProtKB/TrEMBL
	Cyclin_Y	UniProtKB/TrEMBL
NCBI Gene	316452	ENTREZGENE
PANTHER	CYCLIN Y, ISOFORM A	UniProtKB/TrEMBL
Pfam	Cyclin_N	UniProtKB/TrEMBL
PhenoGen	Ccnyl1	PhenoGen
PIRSF	Cyclin_CG14939	UniProtKB/TrEMBL
RatGTEx	ENSRNOG00000023807	RatGTEx
SMART	CYCLIN	UniProtKB/TrEMBL
Superfamily-SCOP	Cyclin_like	UniProtKB/TrEMBL
UniProt	A0A8I5ZUQ3	ENTREZGENE, UniProtKB/TrEMBL
	A0ABK0LYE0_RAT	UniProtKB/TrEMBL
	F1M4U0_RAT	UniProtKB/TrEMBL

Nomenclature History

Date	Current Symbol	Current Name	Previous Symbol	Previous Name	Description	Reference	Status
2008-02-27	Ccnyl1	cyclin Y-like 1	RGD1310683_predicted	similar to hypothetical protein FLJ40432 (predicted)	Nomenclature updated to reflect human and mouse nomenclature	1299863	APPROVED
2005-01-20	RGD1310683_predicted	similar to hypothetical protein FLJ40432 (predicted)	LOC316452_predicted		Symbol and Name status set to approved	1331353	APPROVED
2005-01-12	LOC316452_predicted	similar to hypothetical protein FLJ40432 (predicted)			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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