Cdh17 (cadherin 17) - Rat Genome Database

Name: Cdh17
Creator: Rat Genome Database
License: Creative Commons CC BY 4.0
Keywords: Rat Gene RGD Genome

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Gene: Cdh17 (cadherin 17) Rattus norvegicus

Analyze

Symbol:

Cdh17

Name:

cadherin 17

RGD ID:

619748

Description:

Predicted to enable calcium ion binding activity; cell adhesion molecule binding activity; and proton-dependent oligopeptide secondary active transmembrane transporter activity. Predicted to be involved in several processes, including cell surface receptor signaling pathway; cell-cell junction organization; and mature B cell differentiation involved in immune response. Located in basolateral plasma membrane. Orthologous to human CDH17 (cadherin 17); INTERACTS WITH (+)-schisandrin B; 17beta-estradiol; 2,2',4,4'-Tetrabromodiphenyl ether.

Type:

protein-coding

RefSeq Status:

VALIDATED

Previously known as:

cadherin-17; LI-cadherin; liver-intestine cadherin

RGD Orthologs

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):	CDH17 (cadherin 17)	HGNC	EggNOG, Ensembl, HomoloGene, Inparanoid, NCBI, OMA, OrthoDB, OrthoMCL, Panther, PhylomeDB, Treefam
Mus musculus (house mouse):	Cdh17 (cadherin 17)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Chinchilla lanigera (long-tailed chinchilla):	Cdh17 (cadherin 17)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Pan paniscus (bonobo/pygmy chimpanzee):	CDH17 (cadherin 17)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Canis lupus familiaris (dog):	CDH17 (cadherin 17)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Ictidomys tridecemlineatus (thirteen-lined ground squirrel):	Cdh17 (cadherin 17)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Sus scrofa (pig):	CDH17 (cadherin 17)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Chlorocebus sabaeus (green monkey):	CDH17 (cadherin 17)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Heterocephalus glaber (naked mole-rat):	Cdh17 (cadherin 17)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Alliance orthologs ³
Homo sapiens (human):	CDH17 (cadherin 17)	Alliance	DIOPT (Ensembl Compara\|HGNC\|Hieranoid\|InParanoid\|OMA\|OrthoFinder\|OrthoInspector\|PANTHER\|PhylomeDB\|SonicParanoid)
Mus musculus (house mouse):	Cdh17 (cadherin 17)	Alliance	DIOPT (Ensembl Compara\|Hieranoid\|InParanoid\|OMA\|OrthoFinder\|OrthoInspector\|PANTHER\|PhylomeDB\|SonicParanoid)
Danio rerio (zebrafish):	cdh17 (cadherin 17, LI cadherin (liver-intestine))	Alliance	DIOPT (Ensembl Compara\|Hieranoid\|InParanoid\|OMA\|OrthoFinder\|OrthoInspector\|PANTHER\|PhylomeDB\|SonicParanoid)
Xenopus tropicalis (tropical clawed frog):	cdh17	Alliance	DIOPT (Ensembl Compara\|OMA\|OrthoFinder\|PANTHER)

Latest Assembly:

mRatBN7.2 - mRatBN7.2 Assembly

Position:

Rat Assembly	Chr	Position (strand)	Source	Genome Browsers
Rat Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
mRatBN7.2	5	25,262,820 - 25,314,884 (+)	NCBI	mRatBN7.2	mRatBN7.2
mRatBN7.2 Ensembl	5	25,262,758 - 25,314,884 (+)	Ensembl		mRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx	5	27,387,641 - 27,439,661 (+)	NCBI	Rnor_SHR	UTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0	5	28,980,395 - 29,032,405 (+)	NCBI	Rnor_SHRSP	UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0	5	28,922,774 - 28,974,871 (+)	NCBI	Rnor_WKY	UTH_Rnor_WKY_Bbb_1.0
Rnor_6.0	5	25,354,187 - 25,443,675 (+)	NCBI	Rnor6.0	Rnor_6.0	rn6	Rnor6.0
Rnor_6.0 Ensembl	5	25,391,115 - 25,443,718 (+)	Ensembl	Rnor6.0		rn6	Rnor6.0
Rnor_5.0	5	30,100,327 - 30,152,651 (+)	NCBI	Rnor5.0	Rnor_5.0	rn5	Rnor5.0
RGSC_v3.4	5	26,047,222 - 26,099,173 (+)	NCBI	RGSC3.4	RGSC_v3.4	rn4	RGSC3.4
RGSC_v3.1	5	26,047,170 - 26,099,164 (+)	NCBI
Celera	5	24,595,130 - 24,647,265 (+)	NCBI		Celera
Cytogenetic Map	5	q13	NCBI

JBrowse:

View Region in Genome Browser (JBrowse)

Model

Annotation Click to see Annotation Detail View

Disease Annotations Click to see Annotation Detail View

genetic disease (ISO)

megacolon (ISO)

occupational asthma (ISO)

Gene-Chemical Interaction Annotations Click to see Annotation Detail View

(+)-schisandrin B (EXP)

17beta-estradiol (EXP)

2,2',4,4'-Tetrabromodiphenyl ether (EXP)

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

2,4,6-trinitrobenzenesulfonic acid (EXP)

3,3',4,4',5-pentachlorobiphenyl (EXP)

3H-1,2-dithiole-3-thione (EXP)

4,4'-sulfonyldiphenol (ISO)

aflatoxin B1 (ISO)

aldrin (ISO)

ammonium chloride (EXP)

andrographolide (ISO)

bathocuproine disulfonic acid (ISO)

benzene (EXP)

benzo[a]pyrene (EXP,ISO)

beta-naphthoflavone (EXP,ISO)

bis(2-ethylhexyl) phthalate (EXP)

bisphenol A (EXP,ISO)

bisphenol F (ISO)

butanal (ISO)

carbamazepine (ISO)

casticin (ISO)

CGP 52608 (ISO)

chloroethene (ISO)

cisplatin (EXP,ISO)

cobalt dichloride (EXP)

cocaine (ISO)

curcumin (ISO)

decabromodiphenyl ether (EXP)

dibenz[a,h]anthracene (EXP)

dibenzo[a,l]pyrene (EXP)

dibutyl phthalate (EXP)

dioxygen (ISO)

endosulfan (EXP)

ethanol (EXP)

flavonoids (EXP)

fluoranthene (EXP)

gentamycin (EXP)

GW 4064 (ISO)

indole-3-methanol (EXP)

ionomycin (ISO)

lead diacetate (ISO)

N-nitrosodiethylamine (EXP,ISO)

nickel dichloride (EXP)

nimesulide (EXP)

paracetamol (EXP,ISO)

phorbol 13-acetate 12-myristate (ISO)

pirinixic acid (EXP,ISO)

pyrrolidine dithiocarbamate (ISO)

quercetin (EXP)

sevoflurane (EXP)

silicon dioxide (ISO)

sulindac sulfide (ISO)

tauroursodeoxycholic acid (EXP)

tetrachloromethane (EXP,ISO)

thioacetamide (EXP)

trichloroethene (EXP)

ursodeoxycholic acid (EXP)

zinc dichloride (ISO)

Gene Ontology Annotations Click to see Annotation Detail View

Biological Process

adherens junction organization (IBA)

B cell differentiation (ISO)

calcium-dependent cell-cell adhesion via plasma membrane cell adhesion molecules (IBA,ISO,ISS)

cell morphogenesis (IBA)

cell-cell adhesion mediated by cadherin (IBA)

cell-cell junction assembly (IBA)

germinal center B cell differentiation (ISO)

homophilic cell adhesion via plasma membrane adhesion molecules (IBA,IEA,ISO,ISS)

integrin-mediated signaling pathway (ISO)

marginal zone B cell differentiation (ISO)

oligopeptide transmembrane transport (ISS)

oligopeptide transport (ISO,ISS)

positive regulation of integrin activation by cell surface receptor linked signal transduction (ISO)

spleen development (ISO)

T cell mediated immunity (ISO)

Cellular Component

adherens junction (IBA)

basolateral plasma membrane (IDA,ISO)

catenin complex (IBA)

cell junction (ISO)

cell surface (ISO)

nucleoplasm (IEA,ISO)

plasma membrane (IEA,ISO)

Molecular Function

cadherin binding (IBA)

calcium ion binding (IBA,IEA)

integrin binding (ISO)

protein binding (ISO)

proton-dependent oligopeptide secondary active transmembrane transporter activity (ISO,ISS)

References

References - curated

#	Reference Title	Reference Citation
1.	Liver-intestine cadherin: molecular cloning and characterization of a novel Ca(2+)-dependent cell adhesion molecule expressed in liver and intestine.	Berndorff D, etal., J Cell Biol 1994 Jun;125(6):1353-69.
2.	Regional expression and dietary regulation of rat small intestinal peptide and amino acid transporter mRNAs.	Erickson RH, etal., Biochem Biophys Res Commun 1995 Nov 2;216(1):249-57.
3.	Phylogenetic-based propagation of functional annotations within the Gene Ontology consortium.	Gaudet P, etal., Brief Bioinform. 2011 Sep;12(5):449-62. doi: 10.1093/bib/bbr042. Epub 2011 Aug 27.
4.	Rat ISS GO annotations from GOA human gene data--August 2006	GOA data from the GO Consortium
5.	Rat ISS GO annotations from MGI mouse gene data--August 2006	MGD data from the GO Consortium
6.	Electronic Transfer of LocusLink and RefSeq Data	NCBI rat LocusLink and RefSeq merged data July 26, 2002
7.	GOA pipeline	RGD automated data pipeline
8.	ClinVar Automated Import and Annotation Pipeline	RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
9.	Data Import for Chemical-Gene Interactions	RGD automated import pipeline for gene-chemical interactions

Additional References at PubMed

PMID:8153632	PMID:10906147	PMID:15023525	PMID:15279905	PMID:15688343	PMID:25336636

Genomics

Comparative Map Data

Cdh17
(Rattus norvegicus - Norway rat)

Rat Assembly	Chr	Position (strand)	Source	Genome Browsers
Rat Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
mRatBN7.2	5	25,262,820 - 25,314,884 (+)	NCBI	mRatBN7.2	mRatBN7.2
mRatBN7.2 Ensembl	5	25,262,758 - 25,314,884 (+)	Ensembl		mRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx	5	27,387,641 - 27,439,661 (+)	NCBI	Rnor_SHR	UTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0	5	28,980,395 - 29,032,405 (+)	NCBI	Rnor_SHRSP	UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0	5	28,922,774 - 28,974,871 (+)	NCBI	Rnor_WKY	UTH_Rnor_WKY_Bbb_1.0
Rnor_6.0	5	25,354,187 - 25,443,675 (+)	NCBI	Rnor6.0	Rnor_6.0	rn6	Rnor6.0
Rnor_6.0 Ensembl	5	25,391,115 - 25,443,718 (+)	Ensembl	Rnor6.0		rn6	Rnor6.0
Rnor_5.0	5	30,100,327 - 30,152,651 (+)	NCBI	Rnor5.0	Rnor_5.0	rn5	Rnor5.0
RGSC_v3.4	5	26,047,222 - 26,099,173 (+)	NCBI	RGSC3.4	RGSC_v3.4	rn4	RGSC3.4
RGSC_v3.1	5	26,047,170 - 26,099,164 (+)	NCBI
Celera	5	24,595,130 - 24,647,265 (+)	NCBI		Celera
Cytogenetic Map	5	q13	NCBI

CDH17
(Homo sapiens - human)

Human Assembly	Chr	Position (strand)	Source	Genome Browsers
Human Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCh38	8	94,127,162 - 94,217,278 (-)	NCBI	GRCh38	GRCh38	hg38	GRCh38
GRCh38.p14 Ensembl	8	94,127,162 - 94,217,303 (-)	Ensembl	GRCh38		hg38	GRCh38
GRCh37	8	95,139,390 - 95,229,506 (-)	NCBI	GRCh37	GRCh37	hg19	GRCh37
Build 36	8	95,208,566 - 95,289,986 (-)	NCBI	NCBI36	Build 36	hg18	NCBI36
Build 34	8	95,208,567 - 95,289,986	NCBI
Celera	8	91,325,519 - 91,415,635 (-)	NCBI		Celera
Cytogenetic Map	8	q22.1	NCBI
HuRef	8	90,347,824 - 90,438,513 (-)	NCBI		HuRef
CHM1_1	8	95,179,693 - 95,269,835 (-)	NCBI		CHM1_1
T2T-CHM13v2.0	8	95,252,073 - 95,342,140 (-)	NCBI		T2T-CHM13v2.0

Cdh17
(Mus musculus - house mouse)

Mouse Assembly	Chr	Position (strand)	Source	Genome Browsers
Mouse Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCm39	4	11,758,157 - 11,817,905 (+)	NCBI	GRCm39	GRCm39	mm39
GRCm39 Ensembl	4	11,758,147 - 11,817,895 (+)	Ensembl		GRCm39 Ensembl
GRCm38	4	11,758,157 - 11,817,905 (+)	NCBI	GRCm38	GRCm38	mm10	GRCm38
GRCm38.p6 Ensembl	4	11,758,147 - 11,817,895 (+)	Ensembl	GRCm38		mm10	GRCm38
MGSCv37	4	11,685,304 - 11,745,052 (+)	NCBI	GRCm37	MGSCv37	mm9	NCBIm37
MGSCv36	4	11,685,362 - 11,745,042 (+)	NCBI		MGSCv36	mm8
Celera	4	11,569,441 - 11,628,305 (+)	NCBI		Celera
Cytogenetic Map	4	A1	NCBI
cM Map	4	5.35	NCBI

Cdh17
(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_004955417	10,370,471 - 10,441,128 (-)	Ensembl	ChiLan1.0
ChiLan1.0	NW_004955417	10,370,606 - 10,441,008 (-)	NCBI	ChiLan1.0	ChiLan1.0

CDH17
(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	8	86,997,151 - 87,064,876 (-)	NCBI		NHGRI_mPanPan1
Mhudiblu_PPA_v0	8	90,750,904 - 90,818,629 (-)	NCBI	Mhudiblu_PPA_v0	Mhudiblu_PPA_v0	panPan3
PanPan1.1	8	92,695,117 - 92,785,121 (-)	NCBI	panpan1.1	PanPan1.1	panPan2
PanPan1.1 Ensembl	8	92,696,182 - 92,760,732 (-)	Ensembl	panpan1.1		panPan2

CDH17
(Canis lupus familiaris - dog)

Dog Assembly	Chr	Position (strand)	Source	Genome Browsers
Dog Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
CanFam3.1	29	38,918,098 - 38,980,709 (-)	NCBI	CanFam3.1	CanFam3.1	canFam3	CanFam3.1
CanFam3.1 Ensembl	29	38,918,574 - 38,977,217 (-)	Ensembl	CanFam3.1		canFam3	CanFam3.1
Dog10K_Boxer_Tasha	29	39,079,502 - 39,142,004 (-)	NCBI		Dog10K_Boxer_Tasha
ROS_Cfam_1.0	29	39,122,089 - 39,184,589 (-)	NCBI		ROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl	29	39,107,346 - 39,239,841 (-)	Ensembl		ROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.1	29	39,135,742 - 39,198,280 (-)	NCBI		UMICH_Zoey_3.1
UNSW_CanFamBas_1.0	29	39,130,928 - 39,193,449 (-)	NCBI		UNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0	29	39,572,504 - 39,635,045 (-)	NCBI		UU_Cfam_GSD_1.0

Cdh17
(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	40,573,286 - 40,636,936 (+)	NCBI		HiC_Itri_2
SpeTri2.0 Ensembl	NW_004936544	7,156,213 - 7,205,127 (-)	Ensembl	SpeTri2.0
SpeTri2.0	NW_004936544	7,156,213 - 7,208,392 (-)	NCBI	SpeTri2.0	SpeTri2.0		SpeTri2.0

CDH17
(Sus scrofa - pig)

Pig Assembly	Chr	Position (strand)	Source	Genome Browsers
Pig Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
Sscrofa11.1 Ensembl	4	42,515,276 - 42,597,772 (+)	Ensembl	Sscrofa11.1		susScr11	Sscrofa11.1
Sscrofa11.1	4	42,508,852 - 42,597,888 (+)	NCBI	Sscrofa11.1	Sscrofa11.1	susScr11	Sscrofa11.1
Sscrofa10.2	4	45,926,942 - 46,015,745 (+)	NCBI	Sscrofa10.2	Sscrofa10.2	susScr3

CDH17
(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	8	89,101,788 - 89,179,353 (-)	NCBI	ChlSab1.1	ChlSab1.1	chlSab2
ChlSab1.1 Ensembl	8	89,101,744 - 89,179,251 (-)	Ensembl	ChlSab1.1	ChlSab1.1 Ensembl	chlSab2
Vero_WHO_p1.0	NW_023666039	51,669,207 - 51,747,510 (+)	NCBI	Vero_WHO_p1.0	Vero_WHO_p1.0

Cdh17
(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_004624763	1,543,048 - 1,621,978 (-)	Ensembl	HetGla_female_1.0	HetGla_female_1.0 Ensembl	hetGla2
HetGla 1.0	NW_004624763	1,543,341 - 1,621,970 (-)	NCBI	HetGla_female_1.0	HetGla 1.0	hetGla2

Variants

Variants in Cdh17
519 total Variants

miRNA Target Status

Predicted Target Of

	Summary Value
Count of predictions:	91
Count of miRNA genes:	67
Interacting mature miRNAs:	79
Transcripts:	ENSRNOT00000021612
Prediction methods:	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.

QTLs in Region (mRatBN7.2)

The following QTLs overlap with this region.

RGD ID	Symbol	Name	LOD	P Value	Trait	Sub Trait	Chr	Start	Stop	Species
1331756	Rf34	Renal function QTL 34	4.16275		kidney blood vessel physiology trait (VT:0100012)	absolute change in renal blood flow rate (CMO:0001168)	5	1	90450412	Rat
70212	Niddm25	Non-insulin dependent diabetes mellitus QTL 25	3.54		blood glucose amount (VT:0000188)	blood glucose level (CMO:0000046)	5	1	131345958	Rat
1331771	Rf35	Renal function QTL 35	4.36965		kidney blood vessel physiology trait (VT:0100012)	absolute change in renal blood flow rate (CMO:0001168)	5	729470	86724018	Rat
2312562	Pur18	Proteinuria QTL 18	2.6	0.001	urine total protein amount (VT:0000032)	urine total protein excretion rate (CMO:0000756)	5	2138965	32656739	Rat
1576314	Eutr1	Estrogen induced uterine response QTL 1			uterus integrity trait (VT:0010575)	pyometritis severity score (CMO:0002009)	5	2138965	166875058	Rat
8662454	Vetf3	Vascular elastic tissue fragility QTL 3	27.4		artery integrity trait (VT:0010639)	number of ruptures of the internal elastic lamina of the abdominal aorta and iliac arteries (CMO:0002562)	5	2282226	69540447	Rat
2313085	Bss59	Bone structure and strength QTL 59	2.9	0.0001	long bone metaphysis morphology trait (VT:0000133)	tibia midshaft total cross-sectional area (CMO:0001715)	5	3844018	26141981	Rat
1300117	Hrtrt8	Heart rate QTL 8	3.49		heart pumping trait (VT:2000009)	heart rate (CMO:0000002)	5	3844018	47869213	Rat
61462	Niddm10	Non-insulin dependent diabetes mellitus QTL 10	3.9	0.001	blood glucose amount (VT:0000188)	plasma glucose level (CMO:0000042)	5	5112159	47171491	Rat
2293666	Bmd38	Bone mineral density QTL 38	4.4		femur size trait (VT:1000369)	femoral neck cortical cross-sectional area (CMO:0001702)	5	8948228	53948228	Rat
7394712	Emca13	Estrogen-induced mammary cancer QTL 13			mammary gland integrity trait (VT:0010552)	mammary tumor number (CMO:0000343)	5	9823266	99753708	Rat
1641903	Alcrsp3	Alcohol response QTL 3			response to alcohol trait (VT:0010489)	duration of loss of righting reflex (CMO:0002289)	5	12689285	57689285	Rat
634305	Mamtr1	Mammary tumor resistance QTL 1		0.0001	mammary gland integrity trait (VT:0010552)	mammary tumor number (CMO:0000343)	5	12789751	113558310	Rat
1600358	Mamtr5	Mammary tumor resistance QTL 5			mammary gland integrity trait (VT:0010552)	mammary tumor number (CMO:0000343)	5	18873947	63873947	Rat
1358353	Srcrtb2	Stress Responsive Cort Basal QTL 2	3.48	0.003	blood corticosterone amount (VT:0005345)	plasma corticosterone level (CMO:0001173)	5	18873947	74251464	Rat
8552954	Pigfal14	Plasma insulin-like growth factor 1 level QTL 14	9		blood insulin-like growth factor amount (VT:0010479)	plasma insulin-like growth factor 1 level (CMO:0001299)	5	21226744	66226744	Rat
1549901	Neudeg2	Neurodegradation QTL 2	4	0	nervous system integrity trait (VT:0010566)	mononuclear cell count (CMO:0002119)	5	24838710	44045280	Rat

Expression

RNA-SEQ Expression

High: > 1000 TPM value Medium: Between 11 and 1000 TPM
Low: Between 0.5 and 10 TPM Below Cutoff: < 0.5 TPM

	alimentary part of gastrointestinal system	circulatory system	endocrine system	exocrine system	hemolymphoid system	hepatobiliary system	integumental system	musculoskeletal system	nervous system	renal system	reproductive system	respiratory system	appendage
High
Medium	3		3	3		3					1
Low		3	26	10	19	10				1	24	11
Below cutoff		39	12	12		12	7	9	54	22	16		7

View RNA-SEQ Expression Data

Sequence

Nucleotide Sequences


RefSeq Transcripts	NM_053977	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	XM_008763521	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	XM_017593131	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	XM_039109160	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	XM_039109161	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	XM_039109162	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	XM_039109163	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	XM_039109164	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
GenBank Nucleotide	CH473962	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	JACYVU010000161	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	L46874	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles

RefSeq Acc Id:

ENSRNOT00000021612 ⟹ ENSRNOP00000021612

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
mRatBN7.2 Ensembl	5	25,262,758 - 25,314,875 (+)	Ensembl
Rnor_6.0 Ensembl	5	25,391,115 - 25,443,718 (+)	Ensembl

RefSeq Acc Id:

ENSRNOT00000095525 ⟹ ENSRNOP00000084699

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
mRatBN7.2 Ensembl	5	25,275,483 - 25,314,884 (+)	Ensembl

RefSeq Acc Id:

ENSRNOT00000101237 ⟹ ENSRNOP00000096139

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
mRatBN7.2 Ensembl	5	25,275,551 - 25,314,884 (+)	Ensembl

RefSeq Acc Id:

NM_053977 ⟹ NP_446429

RefSeq Status:

VALIDATED

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
mRatBN7.2	5	25,262,820 - 25,314,884 (+)	NCBI
Rnor_6.0	5	25,391,236 - 25,443,675 (+)	NCBI
Rnor_5.0	5	30,100,327 - 30,152,651 (+)	NCBI
RGSC_v3.4	5	26,047,222 - 26,099,173 (+)	RGD
Celera	5	24,595,130 - 24,647,265 (+)	RGD

Sequence:

show sequence

GGGGTTCTTCAGCCACAGCAAGTATCTCCACGGCTGAATGGACGACAACGACTTTTAAGCAGTA
TTTTCTTACTTACAGAAAGGAGTCCAAGTGAAGAGAGCAACATGGTCTCTGCCCAGCTTCACTT
CCTGTGTCTTCTCACGCTTTATTTGACTGGCGCATATGGCCAAGAAGGGAAGTTCAGCGGCCCC
CTGAAACCCATGACATTCTCTATTTTTGAAGGCCAAGAACCGAGTCAAATCATATTCCAGTTTA
AGGCCAACCCTCCAGCTGTGACTTTTGAGCTAACAGGAGAGACGGATGGTATATTTAAGATAGA
AAAGGATGGACTTCTTTATCACACAAGAGTCCTGGACAGAGAAACAAGGGCGGTTCATCATCTG
CAGCTTGCAGCCTTGGATTCTCAGGGAGCTATAGTGGATGGCCCAGTCCCCATCATCATAGAAG
TCAAGGACATCAATGACAACCGACCTACATTTCTCCAGACAAAATATGAAGGCTCAGTGAGGCA
GAACTCTCGCCCAGGAAAGCCTTTCATGTATGTCAATGCTACAGACCTGGATGACCCGGCTACT
CCCAATGGCCAGCTTTTTTATCAAATTGTCATCCAGCTTCCCAAAATCAACAATGTTATGTACT
TCCAGATCGACAACAAAACAGGGGCAATCTCGCTTACCCCAGAAGGTTCTCAGGTATTGGATCC
AATAAAGAATCCGTACTACAACCTGGTGGTCTCTGTGAAGGACATGGGGGGCCAGAATGAGAAT
TCCTTCAGCGATACCACATCTGTGGATATTACTGTCAGAGAGAACATCTGGAAAGCACCAGAGC
CTGTGGAGATTCGAGAAAACTTAACTGATCCTCACCCCATCAAAATCACTCAGGTGCAGTGGAA
TGACCCAGGGGCCCACTATTCCTTAATCAACAAGGAGAAGCTGCCACAGTTTCCATTCTCGATC
GACCAAGAAGGAAATATTTACGTGACTCAGCCTTTGGACCGTGAGGAAAAGGACTCTCATGTTT
TCTTTGCCACTGCCAAGGATGAGAATGGAAAACCCCTCGCATATCCACTGGAAATTCGTGTGAA
AGTTATTGACATTAATGACAACCCACCGACATGTCTCTCTCAAGTGACTGTATTTGAAGTCCAG
GAGAATGAAGTCTTGGGTAGTAGCATTGGGATCTTTGCTGCCCACGATATGGATGAAGCTAACA
ATATCAACAGTATTTTGAAGTACAGACTTGTAGACCAAACACCCAAAGTTCCCTCAGATGAACT
CTTTCTCATTGACGAATATGGAGGAAAGGTCCAGTTGGGTAAACGGTCCTTGAAGAAGCAAGAC
AGTCCTCAGTACAACTTAACAGTAGAGGTGTCTGACATAGATTTCAAGACTCTCTGTTCTCTTC
AAGTCAACGTTATTGATATCAACGATCAGATTCCCATCTTTGAAAGATCAGACTATGGAAGCAA
GACTCTTTCTGAAGACACAGCCATCGGATCCACCATCTTAATCATCCAAGCTACTGATGATGAT
GAGCCCTTTACCGGGAGCTCTAAAATTCTGTACAAGATTGTACAGGGAGACACTGAGGGAAGAC
TGGAAGTTGTCACAGATCCCATGACCAATACAGGATACGTCAAGATCAGAAAGCCTCTTGATTT
TGAAACCGAACCAGTTACTAGCATTGTGTTCAAAGCAGAAAACCCTGAGCCGCTGGTGAATGGC
ATAGAGTACAATGCTAGTTCTTTTGCCTCCTTCGAGCTGACCGTGACGGATGTGAATGAAGTGC
CTGTATTTCCCCAGCAAATATTCCAAGCCAACGTTAGCGAGGATACTGCTATAGGCACTAAAGT
GGGCACTGTGACTGCCAGGGATCCGGAAGGCCTGACTGTGAGTTATTCACTGAAAGACAATAAG
AGAGGTTGGCTTAAAATCGACTCCGTCACCGGCGACATATTTAGCACTGCTCCGCTGGACAGGG
AAACAGAAAGTGTGTATCGAGTACAAGTGGTGGCCACTGAAGTAGGTGGGTCCTCTCTGAGTTC
TACAGCATATTTCCACCTGGTCCTCATGGATGTGAATGACAACCCCCCTCGCCTAGCTAAGGAC
TACACAGGCTTGTTCTTCTGCCATCCCCTAAGTGCCCCTGGGAGCCTCATCTTTGAAGCCACTG
ATGATGACCAGCAGTCAGTTCGGAGGCCCAAGTTTACGTTTGCCCTTGGCAGAGAAAGCTTACA
AAGTGACTGGGAAGTGTCCAAAATCAATGGCACACATGCTAGACTCTCCACCAAGCACACACGC
TTTGAGGAACAAGTTTATGACATCCCAATCCTCATCAATGATGGGGGGCAGCCACCCATGGAAG
GCATTGTCTCCTTATCAGTTACTTTCTGCCAGTGTGTGGACGGAAGTTGTTTCCGGCCAGCAGG
CAACCAGGTTGGGATACCCACCGTGGGCATGGCAGTTGGTATACTTCTGACCACATTTCTGGTC
ATTGGTATAATTTTAGCGGTTGTATTCATCCGTATGAGGAAAGATAAAGTTGAAGATCCACAGT
CCCCTGAGAATAAGCCTCTGAGGAGCTGAATTTGAACAGAAATGTTCAAGGTTGTACACCAAGC
ACTGTATCAATGCCTCAGCTGTTTAATTTCATCCAAAATGTGAACTATAATTGGTAGAGTTTAT
GCATCATGTGCTATATCTGGTCCCCAGCTGTTTAATCTCATAATTTCATCCAAAATGTGAACTA
TAATTTCTTTGATGGCATGCCCTTCTTGTCCTGCAACACTTAACGCTACTTAGATATTTTATCT
CTGTAGACATTAGAGTTACTCTCCATTCCCCCATAACATTTTGCTCCTTTACAAAAGCCTACAT
AACATGAACTTTCCCTTCTGGGAAAGAAGATGAACTAGGTATAAACCCTGTGTGCTGTTGTTTC
AGAGACAAGTCTGTTTTCTCCCAACTGACTTTTCTAGGCTCCACTTATCCCTTTCTGTTTCCAC
CTGCGCCCCCTGATCTCAGCATTACATTAAATTTAAAATGTGTCACACAAAAGAACAAAGTGAA
GTCCTTGGGGGGGGTGTTGCTAAGTGGACAGCCTTATTCTTTAGCACAAACAACAGCTTCTCTG
TGTTGTCATCTTTAATAGAGGTCCTCCAGCTTGGCTATGGTGTAGACCCTGGGGAGGTATCAAA
TACAACTGCCGTGTTTCAAGAAAGACCTACTTCATGAGGCACAGGAACTGACGAGCTGTCTGGG
TTTACTCACTACTCCGTGCTTACATACATGCTGTACATGTTTTATTTGTATATTGAAGTTTTGT
TATATATTTATCATGTGGAGGAAAGACGAAAGCATGTACGTGGTGAAGAAATCCAAAATAAATG
TTGGTTTCAGTTGTTTTTA

hide sequence

RefSeq Acc Id:

XM_039109160 ⟹ XP_038965088

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
mRatBN7.2	5	25,271,030 - 25,311,840 (+)	NCBI

RefSeq Acc Id:

XM_039109161 ⟹ XP_038965089

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
mRatBN7.2	5	25,275,285 - 25,311,840 (+)	NCBI

RefSeq Acc Id:

XM_039109162 ⟹ XP_038965090

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
mRatBN7.2	5	25,262,823 - 25,311,840 (+)	NCBI

RefSeq Acc Id:

XM_039109163 ⟹ XP_038965091

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
mRatBN7.2	5	25,271,032 - 25,314,884 (+)	NCBI

RefSeq Acc Id:

XM_039109164 ⟹ XP_038965092

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
mRatBN7.2	5	25,271,032 - 25,314,879 (+)	NCBI

Protein Sequences


Protein RefSeqs	NP_446429	(Get FASTA)	NCBI Sequence Viewer
	XP_038965088	(Get FASTA)	NCBI Sequence Viewer
	XP_038965089	(Get FASTA)	NCBI Sequence Viewer
	XP_038965090	(Get FASTA)	NCBI Sequence Viewer
	XP_038965091	(Get FASTA)	NCBI Sequence Viewer
	XP_038965092	(Get FASTA)	NCBI Sequence Viewer
GenBank Protein	AAC42077	(Get FASTA)	NCBI Sequence Viewer
	EDL98443	(Get FASTA)	NCBI Sequence Viewer
Ensembl Protein	ENSRNOP00000021612
	ENSRNOP00000084699.1
	ENSRNOP00000096139.1
GenBank Protein	P55281	(Get FASTA)	NCBI Sequence Viewer

RefSeq Acc Id:	NP_446429 ⟸ NM_053977
- Peptide Label:	precursor
- UniProtKB:	P55281 (UniProtKB/Swiss-Prot), A6II73 (UniProtKB/TrEMBL), A0A8I6ANM1 (UniProtKB/TrEMBL)
- Sequence:	show sequence MVSAQLHFLCLLTLYLTGAYGQEGKFSGPLKPMTFSIFEGQEPSQIIFQFKANPPAVTFELTGE TDGIFKIEKDGLLYHTRVLDRETRAVHHLQLAALDSQGAIVDGPVPIIIEVKDINDNRPTFLQT KYEGSVRQNSRPGKPFMYVNATDLDDPATPNGQLFYQIVIQLPKINNVMYFQIDNKTGAISLTP EGSQVLDPIKNPYYNLVVSVKDMGGQNENSFSDTTSVDITVRENIWKAPEPVEIRENLTDPHPI KITQVQWNDPGAHYSLINKEKLPQFPFSIDQEGNIYVTQPLDREEKDSHVFFATAKDENGKPLA YPLEIRVKVIDINDNPPTCLSQVTVFEVQENEVLGSSIGIFAAHDMDEANNINSILKYRLVDQT PKVPSDELFLIDEYGGKVQLGKRSLKKQDSPQYNLTVEVSDIDFKTLCSLQVNVIDINDQIPIF ERSDYGSKTLSEDTAIGSTILIIQATDDDEPFTGSSKILYKIVQGDTEGRLEVVTDPMTNTGYV KIRKPLDFETEPVTSIVFKAENPEPLVNGIEYNASSFASFELTVTDVNEVPVFPQQIFQANVSE DTAIGTKVGTVTARDPEGLTVSYSLKDNKRGWLKIDSVTGDIFSTAPLDRETESVYRVQVVATE VGGSSLSSTAYFHLVLMDVNDNPPRLAKDYTGLFFCHPLSAPGSLIFEATDDDQQSVRRPKFTF ALGRESLQSDWEVSKINGTHARLSTKHTRFEEQVYDIPILINDGGQPPMEGIVSLSVTFCQCVD GSCFRPAGNQVGIPTVGMAVGILLTTFLVIGIILAVVFIRMRKDKVEDPQSPENKPLRS hide sequence

RefSeq Acc Id:

ENSRNOP00000021612 ⟸ ENSRNOT00000021612

RefSeq Acc Id:	XP_038965090 ⟸ XM_039109162
- Peptide Label:	isoform X3
- UniProtKB:	A0A8I5ZZV9 (UniProtKB/TrEMBL)

RefSeq Acc Id:	XP_038965088 ⟸ XM_039109160
- Peptide Label:	isoform X1
- UniProtKB:	A0A8I5ZZV9 (UniProtKB/TrEMBL)

RefSeq Acc Id:	XP_038965091 ⟸ XM_039109163
- Peptide Label:	isoform X4
- UniProtKB:	A0A8I6ANM1 (UniProtKB/TrEMBL)

RefSeq Acc Id:	XP_038965092 ⟸ XM_039109164
- Peptide Label:	isoform X4
- UniProtKB:	A0A8I6ANM1 (UniProtKB/TrEMBL)

RefSeq Acc Id:	XP_038965089 ⟸ XM_039109161
- Peptide Label:	isoform X2
- UniProtKB:	A0A8I5ZZV9 (UniProtKB/TrEMBL)

RefSeq Acc Id:

ENSRNOP00000096139 ⟸ ENSRNOT00000101237

RefSeq Acc Id:

ENSRNOP00000084699 ⟸ ENSRNOT00000095525

Protein Domains

Cadherin

Protein Structures

Name	Modeler	Protein Id	AA Range	Protein Structure
AF-P55281-F1-model_v2	AlphaFold	P55281	1-827	view protein structure

Transcriptome

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

Promoters

RGD ID:

13693567

Promoter ID:

EPDNEW_R4092

Type:

initiation region

Name:

Cdh17_1

Description:

cadherin 17

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	5	25,391,225 - 25,391,285	EPDNEW

Additional Information

External Database Links

Database	Acc Id	Source(s)
AGR Gene	RGD:619748	AgrOrtholog
BioCyc Gene	G2FUF-41917	BioCyc
Ensembl Genes	ENSRNOG00000015562	Ensembl, ENTREZGENE, UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Ensembl Transcript	ENSRNOT00000021612	ENTREZGENE, UniProtKB/Swiss-Prot
	ENSRNOT00000095525.1	UniProtKB/TrEMBL
	ENSRNOT00000101237.1	UniProtKB/TrEMBL
Gene3D-CATH	Cadherins	UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
InterPro	Cadherin	UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
	Cadherin-like_dom	UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
	Cadherin-like_sf	UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
	Cadherin_CS	UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
KEGG Report	rno:117048	UniProtKB/Swiss-Prot
NCBI Gene	117048	ENTREZGENE
PANTHER	CADHERIN-17	UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
	PTHR24027	UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Pfam	Cadherin	UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PhenoGen	Cdh17	PhenoGen
PRINTS	CADHERIN	UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PROSITE	CADHERIN_1	UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
	CADHERIN_2	UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
RatGTEx	ENSRNOG00000015562	RatGTEx
SMART	SM00112	UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Superfamily-SCOP	SSF49313	UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
UniProt	A0A8I5ZZV9	ENTREZGENE, UniProtKB/TrEMBL
	A0A8I6ANM1	ENTREZGENE, UniProtKB/TrEMBL
	A6II73	ENTREZGENE, UniProtKB/TrEMBL
	CAD17_RAT	UniProtKB/Swiss-Prot, ENTREZGENE

Nomenclature History

Date	Current Symbol	Current Name	Previous Symbol	Previous Name	Description	Reference	Status
2005-01-20	Cdh17	cadherin 17			Symbol and Name status set to approved	1299863	APPROVED
2002-08-07	Cdh17	cadherin 17			Symbol and Name status set to provisional	70820	PROVISIONAL

RGD Curation Notes

Note Type	Note	Reference
gene_cellular_localization	localized to the basolateral domain of hepatocytes and enterocytes	724662
gene_domains	contains DXNDN and DXD motifs representing putative Ca(2+)-binding sites in extracellular domain	724662

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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