Cnbp (CCHC-type zinc finger, nucleic acid binding protein)

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Gene: Cnbp (CCHC-type zinc finger, nucleic acid binding protein) Rattus norvegicus

Analyze

Symbol:

Cnbp

Name:

CCHC-type zinc finger, nucleic acid binding protein

RGD ID:

621807

Description:

Exhibits single-stranded DNA binding activity and single-stranded RNA binding activity. Predicted to be involved in G-quadruplex DNA formation; positive regulation of cell population proliferation; and regulation of cellular macromolecule biosynthetic process. Predicted to localize to cytosol; endoplasmic reticulum; and nucleus. Human ortholog(s) of this gene implicated in myotonic dystrophy type 2. Orthologous to human CNBP (CCHC-type zinc finger nucleic acid binding protein); INTERACTS WITH 3H-1,2-dithiole-3-thione; acetamide; ammonium chloride.

Type:

protein-coding

RefSeq Status:

PROVISIONAL

Also known as:

cellular nucleic acid binding protein; cellular nucleic acid binding protein 1; cellular nucleic acid-binding protein; Cnbp1; zinc finger protein 9 (a cellular retroviral nucleic acid binding protein); Znf9

RGD Orthologs

Human

Mouse

Chinchilla

Bonobo

Dog

Squirrel

Pig

Green Monkey

Naked Mole-Rat

Alliance Genes

More Info

more info ...

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
mRatBN7.2	4	120,302,768 - 120,311,694 (-)	NCBI
Rnor_6.0 Ensembl	4	119,747,911 - 119,756,765 (-)	Ensembl	Rnor6.0		rn6	Rnor6.0
Rnor_6.0	4	119,747,890 - 119,756,787 (-)	NCBI	Rnor6.0	Rnor_6.0	rn6	Rnor6.0
Rnor_5.0	4	184,999,225 - 185,008,701 (-)	NCBI	Rnor5.0	Rnor_5.0	rn5	Rnor5.0
RGSC_v3.4	4	122,033,037 - 122,041,891 (-)	NCBI	RGSC3.4		rn4	RGSC3.4
RGSC_v3.1	4	122,277,517 - 122,286,372 (-)	NCBI
Celera	4	109,263,319 - 109,272,173 (-)	NCBI		Celera
Cytogenetic Map	4	q34	NCBI

JBrowse:

View Region in Genome Browser (JBrowse)

Model

Annotation Click to see Annotation Detail View

Disease Annotations Click to see Annotation Detail View

myotonic disease (ISO)

myotonic dystrophy type 2 (ISO)

Gene-Chemical Interaction Annotations Click to see Annotation Detail View

1,2-dimethylhydrazine (ISO)

17beta-estradiol (ISO)

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

2-butoxyethanol (ISO)

3-isobutyl-1-methyl-7H-xanthine (ISO)

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

acetamide (EXP)

afimoxifene (ISO)

all-trans-retinoic acid (ISO)

ammonium chloride (EXP)

Aroclor 1254 (ISO)

arsenous acid (ISO)

benzo[a]pyrene (ISO)

bis(2-ethylhexyl) phthalate (ISO)

bisphenol A (EXP,ISO)

bisphenol F (ISO)

Brodifacoum (EXP)

butyric acid (EXP)

carbamazepine (ISO)

casticin (ISO)

cobalt dichloride (EXP)

dexamethasone (ISO)

diarsenic trioxide (ISO)

dibutyl phthalate (EXP)

dicrotophos (ISO)

doxorubicin (ISO)

endosulfan (EXP)

enzyme inhibitor (ISO)

ethanol (ISO)

flutamide (EXP)

folic acid (ISO)

fulvestrant (ISO)

geraniol (ISO)

gold atom (ISO)

gold(0) (ISO)

indometacin (ISO)

morphine (EXP)

N-methyl-4-phenylpyridinium (ISO)

pentachlorophenol (ISO)

phenobarbital (ISO)

PhIP (EXP)

raloxifene (ISO)

resveratrol (ISO)

sodium dichromate (EXP)

sunitinib (ISO)

tetrachloromethane (ISO)

Triptolide (EXP)

valproic acid (ISO)

venlafaxine hydrochloride (EXP)

vorinostat (ISO)

zinc atom (ISO)

zinc sulfate (ISO)

zinc(0) (ISO)

Gene Ontology Annotations Click to see Annotation Detail View

Biological Process

G-quadruplex DNA formation (ISO)

negative regulation of transcription by RNA polymerase II (ISO)

positive regulation of cell population proliferation (ISO,ISS)

positive regulation of cytoplasmic translation (IBA)

positive regulation of transcription by RNA polymerase II (ISO,ISS)

positive regulation of transcription, DNA-templated (ISO,ISS)

Cellular Component

cytoplasm (IBA)

cytosol (ISO,ISS)

endoplasmic reticulum (ISO,ISS)

nucleus (ISO,ISS)

Molecular Function

G-quadruplex DNA binding (ISO)

mRNA binding (IBA)

protein binding (ISO)

single-stranded DNA binding (IDA)

single-stranded RNA binding (IBA,IDA)

translation regulator activity (IBA)

zinc ion binding (IEA)

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.	MGD data from the GO Consortium
3.	NCBI rat LocusLink and RefSeq merged data July 26, 2002
4.	RGD automated data pipeline
5.	RGD automated import pipeline for gene-chemical interactions
6.	Strausberg RL, etal., Proc Natl Acad Sci U S A. 2002 Dec 24;99(26):16899-903. Epub 2002 Dec 11.
7.	Yasuda J, etal., DNA Res 1995;2(1):45-9.

Additional References at PubMed

PMID:7896269	PMID:12706888	PMID:15489334	PMID:15978772	PMID:17335846	PMID:20102514	PMID:22658674	PMID:22681889	PMID:23774591	PMID:25002582

Genomics

Comparative Map Data

Cnbp
(Rattus norvegicus - Norway rat)

Rat Assembly	Chr	Position (strand)	Source	Genome Browsers
Rat Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
mRatBN7.2	4	120,302,768 - 120,311,694 (-)	NCBI
Rnor_6.0 Ensembl	4	119,747,911 - 119,756,765 (-)	Ensembl	Rnor6.0		rn6	Rnor6.0
Rnor_6.0	4	119,747,890 - 119,756,787 (-)	NCBI	Rnor6.0	Rnor_6.0	rn6	Rnor6.0
Rnor_5.0	4	184,999,225 - 185,008,701 (-)	NCBI	Rnor5.0	Rnor_5.0	rn5	Rnor5.0
RGSC_v3.4	4	122,033,037 - 122,041,891 (-)	NCBI	RGSC3.4		rn4	RGSC3.4
RGSC_v3.1	4	122,277,517 - 122,286,372 (-)	NCBI
Celera	4	109,263,319 - 109,272,173 (-)	NCBI		Celera
Cytogenetic Map	4	q34	NCBI

CNBP
(Homo sapiens - human)

Human Assembly	Chr	Position (strand)	Source	Genome Browsers
Human Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCh38.p13 Ensembl	3	129,167,827 - 129,183,922 (-)	Ensembl	GRCh38		hg38	GRCh38
GRCh38.p13 Ensembl	3	129,169,484 - 129,183,922 (-)	Ensembl	GRCh38		hg38	GRCh38
GRCh38	3	129,167,827 - 129,183,896 (-)	NCBI	GRCh38	GRCh38	hg38	GRCh38
GRCh37	3	128,886,658 - 128,902,810 (-)	NCBI	GRCh37	GRCh37	hg19	GRCh37
GRCh37	3	128,886,670 - 128,902,739 (-)	NCBI	GRCh37	GRCh37	hg19	GRCh37
Build 36	3	130,371,122 - 130,385,392 (-)	NCBI	NCBI36		hg18	NCBI36
Build 34	3	130,371,129 - 130,385,397	NCBI
Celera	3	127,317,738 - 127,333,863 (-)	NCBI
Cytogenetic Map	3	q21.3	NCBI
HuRef	3	126,273,037 - 126,289,092 (-)	NCBI		HuRef
CHM1_1	3	128,850,015 - 128,866,149 (-)	NCBI		CHM1_1

Cnbp
(Mus musculus - house mouse)

Mouse Assembly	Chr	Position (strand)	Source	Genome Browsers
Mouse Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCm39	6	87,819,597 - 87,828,088 (-)	NCBI	GRCm39		mm39
GRCm38	6	87,842,615 - 87,851,106 (-)	NCBI	GRCm38	GRCm38	mm10	GRCm38
GRCm38.p6 Ensembl	6	87,842,615 - 87,851,106 (-)	Ensembl	GRCm38		mm10	GRCm38
MGSCv37	6	87,792,609 - 87,801,100 (-)	NCBI	GRCm37		mm9	NCBIm37
MGSCv36	6	87,808,720 - 87,816,636 (-)	NCBI			mm8
Celera	6	89,779,944 - 89,788,435 (-)	NCBI		Celera
Cytogenetic Map	6	D1	NCBI

Cnbp
(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_004955429	13,537,222 - 13,549,520 (-)	Ensembl	ChiLan1.0
ChiLan1.0	NW_004955429	13,537,222 - 13,582,026 (-)	NCBI	ChiLan1.0	ChiLan1.0

CNBP
(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	3	133,584,384 - 133,598,847 (-)	NCBI	panpan1.1	PanPan1.1	panPan2
PanPan1.1 Ensembl	3	133,584,384 - 133,598,887 (-)	Ensembl	panpan1.1		panPan2
Mhudiblu_PPA_v0	3	126,227,605 - 126,242,609 (-)	NCBI	Mhudiblu_PPA_v0		panPan3

CNBP
(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	20	2,916,624 - 2,929,303 (+)	Ensembl	CanFam3.1		canFam3	CanFam3.1
CanFam3.1	20	2,860,915 - 2,929,307 (+)	NCBI	CanFam3.1	CanFam3.1	canFam3	CanFam3.1

Cnbp
(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_004936798	207,442 - 210,124 (-)	NCBI	SpeTri2.0	SpeTri2.0		SpeTri2.0

CNBP
(Sus scrofa - pig)

Pig Assembly	Chr	Position (strand)	Source	Genome Browsers
Pig Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
Sscrofa11.1 Ensembl	13	71,630,565 - 71,646,564 (-)	Ensembl	Sscrofa11.1		susScr11	Sscrofa11.1
Sscrofa11.1	13	71,634,552 - 71,707,027 (-)	NCBI	Sscrofa11.1	Sscrofa11.1	susScr11	Sscrofa11.1

LOC103228078
(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	22	51,877,171 - 51,891,912 (+)	NCBI
ChlSab1.1 Ensembl	22	51,876,545 - 51,890,946 (+)	Ensembl

Cnbp
(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_004624943	943,381 - 955,997 (+)	NCBI

Position Markers

PMC15869P1

Rat Assembly	Chr	Position (strand)	Source	JBrowse
Rnor_6.0	4	119,750,209 - 119,750,492	NCBI	Rnor6.0
Rnor_5.0	4	185,001,544 - 185,001,827	UniSTS	Rnor5.0
RGSC_v3.4	4	122,035,335 - 122,035,618	UniSTS	RGSC3.4
Celera	4	109,265,617 - 109,265,900	UniSTS
Cytogenetic Map	4	q34	UniSTS

SHGC-77307

Rat Assembly	Chr	Position (strand)	Source	JBrowse
Rnor_6.0	4	119,748,084 - 119,748,217	NCBI	Rnor6.0
Rnor_5.0	4	184,999,419 - 184,999,552	UniSTS	Rnor5.0
RGSC_v3.4	4	122,033,210 - 122,033,343	UniSTS	RGSC3.4
Celera	4	109,263,492 - 109,263,625	UniSTS
Cytogenetic Map	4	q34	UniSTS

RH132805

Rat Assembly	Chr	Position (strand)	Source	JBrowse
Rnor_6.0	4	119,748,161 - 119,748,341	NCBI	Rnor6.0
Rnor_6.0	11	88,379,967 - 88,380,148	NCBI	Rnor6.0
Rnor_5.0	11	91,434,716 - 91,434,897	UniSTS	Rnor5.0
Rnor_5.0	4	184,999,496 - 184,999,676	UniSTS	Rnor5.0
RGSC_v3.4	11	86,150,602 - 86,150,783	UniSTS	RGSC3.4
RGSC_v3.4	4	122,033,287 - 122,033,467	UniSTS	RGSC3.4
Celera	4	109,263,569 - 109,263,749	UniSTS
Celera	11	82,885,313 - 82,885,494	UniSTS
Cytogenetic Map	4	q34	UniSTS

Cnbp

Rat Assembly	Chr	Position (strand)	Source	JBrowse
Rnor_6.0	4	119,747,894 - 119,748,062	NCBI	Rnor6.0
Rnor_5.0	4	184,999,229 - 184,999,397	UniSTS	Rnor5.0
RGSC_v3.4	4	122,033,020 - 122,033,188	UniSTS	RGSC3.4
Celera	4	109,263,302 - 109,263,470	UniSTS
Cytogenetic Map	4	q34	UniSTS

RH124749

Rat Assembly	Chr	Position (strand)	Source	JBrowse
Rnor_6.0	4	119,748,200 - 119,748,350	NCBI	Rnor6.0
Rnor_5.0	4	184,999,535 - 184,999,685	UniSTS	Rnor5.0
RGSC_v3.4	4	122,033,326 - 122,033,476	UniSTS	RGSC3.4
Celera	4	109,263,608 - 109,263,758	UniSTS
Cytogenetic Map	4	q34	UniSTS

UniSTS:224585

Rat Assembly	Chr	Position (strand)	Source	JBrowse
Rnor_6.0	4	119,748,534 - 119,748,728	NCBI	Rnor6.0
Rnor_5.0	4	184,999,869 - 185,000,063	UniSTS	Rnor5.0
RGSC_v3.4	4	122,033,660 - 122,033,854	UniSTS	RGSC3.4
Celera	4	109,263,942 - 109,264,136	UniSTS
Cytogenetic Map	4	q34	UniSTS

Cnbp

Rat Assembly	Chr	Position (strand)	Source	JBrowse
Rnor_6.0	11	88,378,608 - 88,379,094	NCBI	Rnor6.0
Rnor_5.0	11	91,433,357 - 91,433,843	UniSTS	Rnor5.0
Celera	11	82,883,954 - 82,884,440	UniSTS
Cytogenetic Map	4	q34	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
2303168	Bp330	Blood pressure QTL 330	4.25	0.017	arterial blood pressure trait (VT:2000000)	mean arterial blood pressure (CMO:0000009)	4	3043231	145254791	Rat
2316958	Gluco58	Glucose level QTL 58	10		blood glucose amount (VT:0000188)	blood glucose level (CMO:0000046)	4	7850904	182171018	Rat
10755501	Bp390	Blood pressure QTL 390	2.5		arterial blood pressure trait (VT:2000000)	diastolic blood pressure (CMO:0000005)	4	23850384	169318094	Rat
1358352	Srcrt3	Stress Responsive Cort QTL 3	2.29		blood corticosterone amount (VT:0005345)	plasma corticosterone level (CMO:0001173)	4	36615599	145611886	Rat
1576305	Emca6	Estrogen-induced mammary cancer QTL 6	5.8		mammary gland integrity trait (VT:0010552)	mammary tumor number (CMO:0000343)	4	43414605	155469929	Rat
1354660	Salc1	Saline consumption QTL 1	11.26		drinking behavior trait (VT:0001422)	saline drink intake rate (CMO:0001627)	4	43414792	146942075	Rat
1354612	Foco1	Food consumption QTL 1	8.87		eating behavior trait (VT:0001431)	food intake rate (CMO:0000427)	4	43414792	146942075	Rat
1298082	Stresp4	Stress response QTL 4			blood corticosterone amount (VT:0005345)	plasma corticosterone level (CMO:0001173)	4	46898276	145611886	Rat
2312567	Glom19	Glomerulus QTL 19	1.9	0.006	kidney glomerulus morphology trait (VT:0005325)	index of glomerular damage (CMO:0001135)	4	49906054	145611886	Rat
70200	Alc18	Alcohol consumption QTL 18	9.2		drinking behavior trait (VT:0001422)	ethanol intake volume to total fluid intake volume ratio (CMO:0001591)	4	55324953	148360954	Rat
1641833	Alc21	Alcohol consumption QTL 21	8.6	0.0001	drinking behavior trait (VT:0001422)	ethanol drink intake rate (CMO:0001407)	4	55375865	125671711	Rat
738009	Sach4	Saccharine consumption QTL 4	4.9	0.000016	consumption behavior trait (VT:0002069)	saccharin intake volume to total fluid intake volume ratio (CMO:0001601)	4	58640017	154427984	Rat
738016	Alc16	Alcohol consumption QTL 16	3.6	0.00015	consumption behavior trait (VT:0002069)	ethanol drink intake rate to body weight ratio (CMO:0001616)	4	58640017	154427984	Rat
738031	Alc14	Alcohol consumption QTL 14	7.6	0.00003	consumption behavior trait (VT:0002069)	ethanol drink intake rate to body weight ratio (CMO:0001616)	4	58640017	154427984	Rat
61418	Pia5	Pristane induced arthritis QTL 5	4.5		joint integrity trait (VT:0010548)	joint inflammation composite score (CMO:0000919)	4	61038901	127777403	Rat
1641919	Alc22	Alcohol consumption QTL 22		0.0005	drinking behavior trait (VT:0001422)	ethanol drink intake rate (CMO:0001407)	4	62947687	125671711	Rat
631674	Iddm14	Insulin dependent diabetes mellitus QTL 14			blood glucose amount (VT:0000188)	plasma glucose level (CMO:0000042)	4	63537179	157286626	Rat
61330	Eau1	Experimental allergic uveoretinitis QTL 1		0.0003	uvea integrity trait (VT:0010551)	experimental autoimmune uveitis score (CMO:0001504)	4	70773471	132455556	Rat
631646	Stl4	Serum triglyceride level QTL 4	6.5	0.0001	blood triglyceride amount (VT:0002644)	plasma triglyceride level (CMO:0000548)	4	73786419	132455556	Rat
724522	Bp146	Blood pressure QTL 146	2.2	0.0021	arterial blood pressure trait (VT:2000000)	systolic blood pressure (CMO:0000004)	4	75258970	120258970	Rat
2302051	Pia28	Pristane induced arthritis QTL 28	5.3	0.001	blood autoantibody amount (VT:0003725)	serum immunoglobulin G-type rheumatoid factor level relative to an arbitrary reference serum (CMO:0002112)	4	75258970	120258970	Rat
738015	Pia9	Pristane induced arthritis QTL 9	4.5	0.048	joint integrity trait (VT:0010548)	joint inflammation composite score (CMO:0000919)	4	76567036	121567036	Rat
631662	Hcar2	Hepatocarcinoma resistance QTL 2	3.1	0.0003	liver integrity trait (VT:0010547)	volume of individual liver tumorous lesion (CMO:0001078)	4	79555067	124555067	Rat
70177	Xhs1	X-ray hypersensitivity QTL 1	25.1		intestine integrity trait (VT:0010554)	post-insult time to onset of moribundity (CMO:0001896)	4	81959983	152055009	Rat
1576316	Ept5	Estrogen-induced pituitary tumorigenesis QTL 5	3.8		pituitary gland mass (VT:0010496)	pituitary gland wet weight (CMO:0000853)	4	84475257	178931073	Rat
634334	Xhs3	X-ray hypersensitivity QTL 3	10		intestine integrity trait (VT:0010554)	post-insult time to onset of moribundity (CMO:0001896)	4	85794049	129615056	Rat
1582232	Gluco25	Glucose level QTL 25	3.6	0.0023	blood glucose amount (VT:0000188)	blood glucose level (CMO:0000046)	4	86312589	146942261	Rat
12798523	Anxrr56	Anxiety related response QTL 56	2.83	0.05	locomotor behavior trait (VT:0001392)	amount of experiment time spent in a discrete space in an experimental apparatus (CMO:0000958)	4	86312589	147702403	Rat
1358202	Gluco11	Glucose level QTL 11	2.4	0.02	adipocyte glucose uptake trait (VT:0004185)	absolute change in adipocyte glucose uptake (CMO:0000873)	4	86438317	168047091	Rat
61476	Aia3	Adjuvant induced arthritis QTL 3	3.9		joint integrity trait (VT:0010548)	joint inflammation composite score (CMO:0000919)	4	86532519	131532519	Rat
1578662	Bss15	Bone structure and strength QTL 15	19.6		femur width (VT:1000666)	femoral neck width (CMO:0001695)	4	87136446	132136446	Rat
1578670	Bss14	Bone structure and strength QTL 14	16.4		femur morphology trait (VT:0000559)	bone trabecular cross-sectional area (CMO:0002311)	4	87136446	132136446	Rat
631689	Scl4	Serum cholesterol level QTL 4	1.9	0.008	blood cholesterol amount (VT:0000180)	serum total cholesterol level (CMO:0000363)	4	94414208	139414208	Rat
634335	Anxrr16	Anxiety related response QTL 16	7.22		locomotor behavior trait (VT:0001392)	number of entries into a discrete space in an experimental apparatus (CMO:0000960)	4	94893247	168046938	Rat
61434	Cia3	Collagen induced arthritis QTL 3	4.8		joint integrity trait (VT:0010548)	joint inflammation composite score (CMO:0000919)	4	99066823	144066823	Rat
2302049	Pia32	Pristane induced arthritis QTL 32	5.1	0.001	blood autoantibody amount (VT:0003725)	serum immunoglobulin G-type rheumatoid factor level relative to an arbitrary reference serum (CMO:0002112)	4	105277348	150277348	Rat
61406	Scwia1	Streptococcal cell wall induced arthritis QTL 1	2.3		joint integrity trait (VT:0010548)	experimental arthritis severity measurement (CMO:0001459)	4	105682594	150682594	Rat
737821	Hcar9	Hepatocarcinoma resistance QTL 9	3.7		liver integrity trait (VT:0010547)	volume of individual liver tumorous lesion (CMO:0001078)	4	105971071	168047091	Rat
731165	Uae21	Urinary albumin excretion QTL 21	2.4	0.0001	urine albumin amount (VT:0002871)	urine albumin excretion rate (CMO:0000757)	4	106347236	151347236	Rat
1331759	Hrtrt13	Heart rate QTL 13	3.54628		heart pumping trait (VT:2000009)	heart rate (CMO:0000002)	4	108876717	169215811	Rat
1549832	Bss3	Bone structure and strength QTL 3	11		femur morphology trait (VT:0000559)	femur midshaft cortical cross-sectional area (CMO:0001663)	4	109636356	154636356	Rat
7207480	Bss105	Bone structure and strength QTL 105	8.1		femur strength trait (VT:0010010)	femur midshaft polar moment of inertia (CMO:0001669)	4	109636356	154636356	Rat
6478760	Anxrr45	Anxiety related response QTL 45		0.06717	locomotor behavior trait (VT:0001392)	amount of experiment time spent in a discrete space in an experimental apparatus (CMO:0000958)	4	110702761	155702761	Rat
6478763	Anxrr46	Anxiety related response QTL 46		0.07428	locomotor behavior trait (VT:0001392)	amount of experiment time spent in a discrete space in an experimental apparatus (CMO:0000958)	4	110702761	155702761	Rat
12798519	Anxrr54	Anxiety related response QTL 54	2.54	0.05	locomotor behavior trait (VT:0001392)	distance moved per unit of time into, out of or within a discrete space in an experimental apparatus (CMO:0001493)	4	112807675	157807675	Rat
1300116	Hrtrt5	Heart rate QTL 5	3.76		heart pumping trait (VT:2000009)	heart rate (CMO:0000002)	4	115372758	150038284	Rat
1331802	Srn5	Serum renin concentration QTL 5	3.045		renin activity (VT:0005581)	plasma renin activity level (CMO:0000116)	4	116726724	157291438	Rat
724535	Cm18	Cardiac mass QTL 18	2.6		heart mass (VT:0007028)	calculated heart weight (CMO:0000073)	4	117926139	162926139	Rat
70201	Gcr1	Gastric cancer resistance QTL 1	2.7		stomach morphology trait (VT:0000470)	stomach tumor susceptibility score (CMO:0002043)	4	119705414	146087100	Rat

miRNA Target Status

Predicted Target Of

	Summary Value
Count of predictions:	133
Count of miRNA genes:	104
Interacting mature miRNAs:	120
Transcripts:	ENSRNOT00000013884
Prediction methods:	Miranda, 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	3	43	57	41	19	41	8	11	74	35	41	11	8
Low
Below cutoff

View RNA-SEQ Expression Data

Sequence

Nucleotide Sequences


RefSeq Transcripts	NM_022598	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	XM_006236854	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	XM_017592878	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	XM_017592879	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
GenBank Nucleotide	AB158421	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	AB158422	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	AB189958	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	AB189959	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	AC097129	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	AF242550	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	AY329616	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	AY329624	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	BC062225	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	CH473957	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	D45254	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	FQ224117	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	FQ232286	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	JACYVU010000148	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles

Reference Sequences

RefSeq Acc Id:

ENSRNOT00000013884 ⟹ ENSRNOP00000013884

RefSeq Status:

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
Rnor_6.0 Ensembl	4	119,747,911 - 119,756,765 (-)	Ensembl

RefSeq Acc Id:

NM_022598 ⟹ NP_072120

RefSeq Status:

PROVISIONAL

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
mRatBN7.2	4	120,302,789 - 120,311,645 (-)	NCBI
Rnor_6.0	4	119,747,911 - 119,756,765 (-)	NCBI
Rnor_5.0	4	184,999,225 - 185,008,701 (-)	NCBI
RGSC_v3.4	4	122,033,037 - 122,041,891 (-)	RGD
Celera	4	109,263,319 - 109,272,173 (-)	RGD

Sequence:

show sequence

AGAGCCGTGCGCAGCGGCGTGTGTGGGGCCGTGTGCAGACCCGCGTGTGGCGCAGGCAAGGACC
CTGAAAATAAACAGCCGCTGCTTTGCGAGTCTCCTTCTTGGGTCTACGTCCGAGTCTCCTCTGC
TGTGGGCAGCTCAGACGCCGAAGCTCTAACTGCAGCTATGAGCAGCAACGAATGCTTCAAGTGT
GGACGATCTGGCCACTGGGCCAGGGAATGCCCTACTGGTGGAGGTCGGGGTCGTGGAATGAGAA
GCCGCGGCAGAGGTGGTTTTACCTCGGATAGAGGGTTCCAGTTTGTTTCCTCGTCTCTTCCTGA
CATCTGTTATCGCTGTGGTGAGTCTGGTCATCTTGCCAAGGATTGTGATCTTCAGGAGGATGCC
TGCTATAACTGCGGTAGAGGTGGCCACATTGCCAAGGACTGCAAGGAGCCCAAGAGAGAGCGAG
AGCAATGCTGCTACAACTGTGGCAAGCCAGGCCATCTGGCTCGTGACTGTGACCACGCGGACGA
GCAGAAGTGCTATTCCTGTGGGGAATTTGGACATATTCAAAAAGACTGCACCAAGGTGAAGTGC
TATAGGTGTGGTGAAACTGGTCATGTAGCCATCAATTGCAGCAAGACAAGTGAAGTCAACTGTT
ACCGCTGTGGCGAGTCAGGGCATCTTGCACGGGAATGCACAATTGAGGCTACTGCCTAATTATT
TTCCTTTGTCGCCCCTCCTTTTTCTGATTGATGGTTGTATTATTTTCTCTGAATCCTCTTCACT
GGCCAAAGGTTGGCAGATAGAGGCTGTTCCCAGGCCAGTGAGCTTTACTTGCAGTGTAAAAGGA
GGAAAGGGGTGGAAAAAAAACCGAATTTCTGCATTTAACTACAAAAAAAGTTTATGTTTAGTTT
GGTAGAGGTGTTATGTATAATGCTTTGTTAAAGAACCCCCTTTCCGTGCCACTGGTGAATAGGG
ATTAATGAATGGGAAGAGTTCAGTCAGACCAGTAAGCCCTTCTGGGTTTGAGTGTGTTCCCATG
TAGGAGGTAAAACCAATTCTGGATGCATCTAAGCTTCCATGAATAACTTTAATTCTTAGCATAA
TGATGGCCTTGGATTGTCTGACCTCAGTAGCTATTAAATAACATCGAGTAACATCTGCATCAGG
CCCTCATAGAACATTCAGTTGAGTTGGGAGTAAACTGAAAAGACAAATGTGTTGAAGGATATGC
CAGGGAATCTGGCTAAAGCCTAATACAGGAGCATCTTCATCCCAGTGTTGATGCTGGACGTACA
GAAGGTGATGGCAAAGGTGTAGAACACATTTTTTCAAAGACTAAATCTAAAACCCAGAGTAAAC
ATCCGATGCTCAGAGTTAGCATAATTTGGAGCTATTCAGGAATTGCAGAGAAATGCATTTTCAC
AGAAATCAAGATGTTATTTTTGTATACTATATCACTTAGACAACTGTGTTTCATTTGCTGTAAT
CAGTTTTTAAAGTCAGATGGAAAAAGCAACTGAAGTCTTAGAAAATAGAAAATGTAATTTTAAA
CTATTCCAATAAAGCTGGAGGAGGAAGGGGAGTTTTGACTAAAGTTCCTTTTGTTTGTTTTAAA
TTTTCATCAATGTATATAGAACAAAATGCCATATTAAAGA

hide sequence

RefSeq Acc Id:

XM_006236854 ⟹ XP_006236916

RefSeq Status:

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
mRatBN7.2	4	120,302,768 - 120,311,694 (-)	NCBI
Rnor_6.0	4	119,747,890 - 119,756,784 (-)	NCBI
Rnor_5.0	4	184,999,225 - 185,008,701 (-)	NCBI

Sequence:

show sequence

CCCGTGGGCGAGGCGGAGGAGAGCCGTGCGCAGCGGCGTGTGTGGGGCCGTGTGCAGACCCGCG
TGTGGCGCAGGCAAGGACCCTGAAAATAAACAGCCGCTGCTTTGCGAGTCTCCTTCTTGGGTCT
ACGTCCGAGTCTCCTCTGCTGTGGGCAGCTCAGACGCCGAAGCTCTAACTGCAGCTATGAGCAG
CAACGAATGCTTCAAGTGTGGACGATCTGGCCACTGGGCCAGGGAATGCCCTACTGGTGGAGGT
CGGGGTCGTGGAATGAGAAGCCGCGGCAGAGGGTTCCAGTTTGTTTCCTCGTCTCTTCCTGACA
TCTGTTATCGCTGTGGTGAGTCTGGTCATCTTGCCAAGGATTGTGATCTTCAGGAGGATGCCTG
CTATAACTGCGGTAGAGGTGGCCACATTGCCAAGGACTGCAAGGAGCCCAAGAGAGAGCGAGAG
CAATGCTGCTACAACTGTGGCAAGCCAGGCCATCTGGCTCGTGACTGTGACCACGCGGACGAGC
AGAAGTGCTATTCCTGTGGGGAATTTGGACATATTCAAAAAGACTGCACCAAGGTGAAGTGCTA
TAGGTGTGGTGAAACTGGTCATGTAGCCATCAATTGCAGCAAGACAAGTGAAGTCAACTGTTAC
CGCTGTGGCGAGTCAGGGCATCTTGCACGGGAATGCACAATTGAGGCTACTGCCTAATTATTTT
CCTTTGTCGCCCCTCCTTTTTCTGATTGATGGTTGTATTATTTTCTCTGAATCCTCTTCACTGG
CCAAAGGTTGGCAGATAGAGGCTGTTCCCAGGCCAGTGAGCTTTACTTGCAGTGTAAAAGGAGG
AAAGGGGTGGAAAAAAAACCGAATTTCTGCATTTAACTACAAAAAAAAGTTTATGTTTAGTTTG
GTAGAGGTGTTATGTATAATGCTTTGTTAAAGAACCCCCTTTCCGTGCCACTGGTGAATAGGGA
TTAATGAATGGGAAGAGTTCAGTCAGACCAGTAAGCCCTTCTGGGTTTGAGTGTGTTCCCATGT
AGGAGGTAAAACCAATTCTGGATGCATCTAAGCTTCCATGAATAACTTTAATTCTTAGCATAAT
GATGGCCTTGGATTGTCTGACCTCAGTAGCTATTAAATAACATCGAGTAACATCTGCATCAGGC
CCTCATAGAACATTCAGTTGAGTTGGGAGTAAACTGAAAAGACAAATGTGTTGAAGGATATGCC
AGGGAATCTGGCTAAAGCCTAATACAGGAGCATCTTCATCCCAGTGTTGATGCTGGACGTACAG
AAGGTGATGGCAAAGGTGTAGAACACATTTTTTCAAAGACTAAATCTAAAACCCAGAGTAAACA
TCCGATGCTCAGAGTTAGCATAATTTGGAGCTATTCAGGAATTGCAGAGAAATGCATTTTCACA
GAAATCAAGATGTTATTTTTGTATACTATATCACTTAGACAACTGTGTTTCATTTGCTGTAATC
AGTTTTTAAAAGTCAGATGGAAAAAGCAACTGAAGTCTTAGAAAATAGAAAATGTAATTTTAAA
CTATTCCAATAAAGCTGGAGGAGGAAGGGGAGTTTTGACTAAAGTTCCTTTTGTTTGTTTTAAA
TTTTCATCAATGTATATAGAACAAAATGCCATATTAAAGAGGGGAATGTGGAGGACTCAAA

hide sequence

RefSeq Acc Id:

XM_017592878 ⟹ XP_017448367

RefSeq Status:

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
mRatBN7.2	4	120,302,768 - 120,311,666 (-)	NCBI
Rnor_6.0	4	119,747,890 - 119,756,785 (-)	NCBI

Sequence:

show sequence

ACCCGTGGGCGAGGCGGAGGAGAGCCGTGCGCAGCGGCGTGTGTGGGGCCGTGTGCAGACCCGC
GTGTGGCGCAGGCAAGGACCCTGAAAATAAACAGCCGCTGCTTTGCGAGTCTCCTTCTTGGGTC
TACGTCCGAGTCTCCTCTGCTGTGGGCAGCTCAGACGCCGAAGCTCTAACTGCAGCTATGAGCA
GCAACGAATGCTTCAAGTGTGGACGATCTGGCCACTGGGCCAGGGAATGCCCTACTGGTGGAGG
TCGGGGTCGTGGAATGAGAAGCCGCGGCAGAGGTGGTTTTACCTCGGATAGAGGGTTCCAGTTT
GTTTCCTCGTCTCTTCCTGACATCTGTTATCGCTGTGGTGAGTCTGGTCATCTTGCCAAGGATT
GTGATCTTCAGGAGGATGAAGCCTGCTATAACTGCGGTAGAGGTGGCCACATTGCCAAGGACTG
CAAGGAGCCCAAGAGAGAGCGAGAGCAATGCTGCTACAACTGTGGCAAGCCAGGCCATCTGGCT
CGTGACTGTGACCACGCGGACGAGCAGAAGTGCTATTCCTGTGGGGAATTTGGACATATTCAAA
AAGACTGCACCAAGGTGAAGTGCTATAGGTGTGGTGAAACTGGTCATGTAGCCATCAATTGCAG
CAAGACAAGTGAAGTCAACTGTTACCGCTGTGGCGAGTCAGGGCATCTTGCACGGGAATGCACA
ATTGAGGCTACTGCCTAATTATTTTCCTTTGTCGCCCCTCCTTTTTCTGATTGATGGTTGTATT
ATTTTCTCTGAATCCTCTTCACTGGCCAAAGGTTGGCAGATAGAGGCTGTTCCCAGGCCAGTGA
GCTTTACTTGCAGTGTAAAAGGAGGAAAGGGGTGGAAAAAAAACCGAATTTCTGCATTTAACTA
CAAAAAAAAGTTTATGTTTAGTTTGGTAGAGGTGTTATGTATAATGCTTTGTTAAAGAACCCCC
TTTCCGTGCCACTGGTGAATAGGGATTAATGAATGGGAAGAGTTCAGTCAGACCAGTAAGCCCT
TCTGGGTTTGAGTGTGTTCCCATGTAGGAGGTAAAACCAATTCTGGATGCATCTAAGCTTCCAT
GAATAACTTTAATTCTTAGCATAATGATGGCCTTGGATTGTCTGACCTCAGTAGCTATTAAATA
ACATCGAGTAACATCTGCATCAGGCCCTCATAGAACATTCAGTTGAGTTGGGAGTAAACTGAAA
AGACAAATGTGTTGAAGGATATGCCAGGGAATCTGGCTAAAGCCTAATACAGGAGCATCTTCAT
CCCAGTGTTGATGCTGGACGTACAGAAGGTGATGGCAAAGGTGTAGAACACATTTTTTCAAAGA
CTAAATCTAAAACCCAGAGTAAACATCCGATGCTCAGAGTTAGCATAATTTGGAGCTATTCAGG
AATTGCAGAGAAATGCATTTTCACAGAAATCAAGATGTTATTTTTGTATACTATATCACTTAGA
CAACTGTGTTTCATTTGCTGTAATCAGTTTTTAAAAGTCAGATGGAAAAAGCAACTGAAGTCTT
AGAAAATAGAAAATGTAATTTTAAACTATTCCAATAAAGCTGGAGGAGGAAGGGGAGTTTTGAC
TAAAGTTCCTTTTGTTTGTTTTAAATTTTCATCAATGTATATAGAACAAAATGCCATATTAAAG
AGGGGAATGTGGAGGACTCAAA

hide sequence

RefSeq Acc Id:

XM_017592879 ⟹ XP_017448368

RefSeq Status:

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
mRatBN7.2	4	120,302,768 - 120,311,666 (-)	NCBI
Rnor_6.0	4	119,747,890 - 119,756,787 (-)	NCBI

Sequence:

show sequence

GGACCCGTGGGCGAGGCGGAGGAGAGCCGTGCGCAGCGGCGTGTGTGGGGCCGTGTGCAGACCC
GCGTGTGGCGCAGGCAAGGACCCTGAAAATAAACAGCCGCTGCTTTGCGAGTCTCCTTCTTGGG
TCTACGTCCGAGTCTCCTCTGCTGTGGGCAGCTCAGACGCCGAAGCTCTAACTGCAGCTATGAG
CAGCAACGAATGCTTCAAGTGTGGACGATCTGGCCACTGGGCCAGGGAATGCCCTACTGGTGGA
GGTCGGGGTCGTGGAATGAGAAGCCGCGGCAGAGGGTTCCAGTTTGTTTCCTCGTCTCTTCCTG
ACATCTGTTATCGCTGTGGTGAGTCTGGTCATCTTGCCAAGGATTGTGATCTTCAGGAGGATGA
AGCCTGCTATAACTGCGGTAGAGGTGGCCACATTGCCAAGGACTGCAAGGAGCCCAAGAGAGAG
CGAGAGCAATGCTGCTACAACTGTGGCAAGCCAGGCCATCTGGCTCGTGACTGTGACCACGCGG
ACGAGCAGAAGTGCTATTCCTGTGGGGAATTTGGACATATTCAAAAAGACTGCACCAAGGTGAA
GTGCTATAGGTGTGGTGAAACTGGTCATGTAGCCATCAATTGCAGCAAGACAAGTGAAGTCAAC
TGTTACCGCTGTGGCGAGTCAGGGCATCTTGCACGGGAATGCACAATTGAGGCTACTGCCTAAT
TATTTTCCTTTGTCGCCCCTCCTTTTTCTGATTGATGGTTGTATTATTTTCTCTGAATCCTCTT
CACTGGCCAAAGGTTGGCAGATAGAGGCTGTTCCCAGGCCAGTGAGCTTTACTTGCAGTGTAAA
AGGAGGAAAGGGGTGGAAAAAAAACCGAATTTCTGCATTTAACTACAAAAAAAAGTTTATGTTT
AGTTTGGTAGAGGTGTTATGTATAATGCTTTGTTAAAGAACCCCCTTTCCGTGCCACTGGTGAA
TAGGGATTAATGAATGGGAAGAGTTCAGTCAGACCAGTAAGCCCTTCTGGGTTTGAGTGTGTTC
CCATGTAGGAGGTAAAACCAATTCTGGATGCATCTAAGCTTCCATGAATAACTTTAATTCTTAG
CATAATGATGGCCTTGGATTGTCTGACCTCAGTAGCTATTAAATAACATCGAGTAACATCTGCA
TCAGGCCCTCATAGAACATTCAGTTGAGTTGGGAGTAAACTGAAAAGACAAATGTGTTGAAGGA
TATGCCAGGGAATCTGGCTAAAGCCTAATACAGGAGCATCTTCATCCCAGTGTTGATGCTGGAC
GTACAGAAGGTGATGGCAAAGGTGTAGAACACATTTTTTCAAAGACTAAATCTAAAACCCAGAG
TAAACATCCGATGCTCAGAGTTAGCATAATTTGGAGCTATTCAGGAATTGCAGAGAAATGCATT
TTCACAGAAATCAAGATGTTATTTTTGTATACTATATCACTTAGACAACTGTGTTTCATTTGCT
GTAATCAGTTTTTAAAAGTCAGATGGAAAAAGCAACTGAAGTCTTAGAAAATAGAAAATGTAAT
TTTAAACTATTCCAATAAAGCTGGAGGAGGAAGGGGAGTTTTGACTAAAGTTCCTTTTGTTTGT
TTTAAATTTTCATCAATGTATATAGAACAAAATGCCATATTAAAGAGGGGAATGTGGAGGACTC
AAA

hide sequence

Protein Sequences


Protein RefSeqs	NP_072120	(Get FASTA)	NCBI Sequence Viewer
	XP_006236916	(Get FASTA)	NCBI Sequence Viewer
	XP_017448367	(Get FASTA)	NCBI Sequence Viewer
	XP_017448368	(Get FASTA)	NCBI Sequence Viewer
GenBank Protein	AAF78224	(Get FASTA)	NCBI Sequence Viewer
	AAH62225	(Get FASTA)	NCBI Sequence Viewer
	AAR89464	(Get FASTA)	NCBI Sequence Viewer
	BAA08212	(Get FASTA)	NCBI Sequence Viewer
	BAE16993	(Get FASTA)	NCBI Sequence Viewer
	BAE16994	(Get FASTA)	NCBI Sequence Viewer
	BAE17005	(Get FASTA)	NCBI Sequence Viewer
	BAE17006	(Get FASTA)	NCBI Sequence Viewer
	EDL91293	(Get FASTA)	NCBI Sequence Viewer
	EDL91294	(Get FASTA)	NCBI Sequence Viewer
	EDL91295	(Get FASTA)	NCBI Sequence Viewer
	EDL91296	(Get FASTA)	NCBI Sequence Viewer
	P62634	(Get FASTA)	NCBI Sequence Viewer

Reference Sequences

RefSeq Acc Id:	NP_072120 ⟸ NM_022598
- UniProtKB:	P62634 (UniProtKB/Swiss-Prot)
- Sequence:	show sequence MSSNECFKCGRSGHWARECPTGGGRGRGMRSRGRGGFTSDRGFQFVSSSLPDICYRCGESGHLA KDCDLQEDACYNCGRGGHIAKDCKEPKREREQCCYNCGKPGHLARDCDHADEQKCYSCGEFGHI QKDCTKVKCYRCGETGHVAINCSKTSEVNCYRCGESGHLARECTIEATA hide sequence

RefSeq Acc Id:	XP_006236916 ⟸ XM_006236854
- Peptide Label:	isoform X3
- Sequence:	show sequence MSSNECFKCGRSGHWARECPTGGGRGRGMRSRGRGFQFVSSSLPDICYRCGESGHLAKDCDLQE DACYNCGRGGHIAKDCKEPKREREQCCYNCGKPGHLARDCDHADEQKCYSCGEFGHIQKDCTKV KCYRCGETGHVAINCSKTSEVNCYRCGESGHLARECTIEATA hide sequence

RefSeq Acc Id:	XP_017448368 ⟸ XM_017592879
- Peptide Label:	isoform X2
- Sequence:	show sequence MSSNECFKCGRSGHWARECPTGGGRGRGMRSRGRGFQFVSSSLPDICYRCGESGHLAKDCDLQE DEACYNCGRGGHIAKDCKEPKREREQCCYNCGKPGHLARDCDHADEQKCYSCGEFGHIQKDCTK VKCYRCGETGHVAINCSKTSEVNCYRCGESGHLARECTIEATA hide sequence

RefSeq Acc Id:	XP_017448367 ⟸ XM_017592878
- Peptide Label:	isoform X1
- Sequence:	show sequence MSSNECFKCGRSGHWARECPTGGGRGRGMRSRGRGGFTSDRGFQFVSSSLPDICYRCGESGHLA KDCDLQEDEACYNCGRGGHIAKDCKEPKREREQCCYNCGKPGHLARDCDHADEQKCYSCGEFGH IQKDCTKVKCYRCGETGHVAINCSKTSEVNCYRCGESGHLARECTIEATA hide sequence

RefSeq Acc Id:

ENSRNOP00000013884 ⟸ ENSRNOT00000013884

Protein Domains

CCHC-type

Transcriptome

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

Promoters

RGD ID:

13693224

Promoter ID:

EPDNEW_R3749

Type:

initiation region

Name:

Cnbp_1

Description:

CCHC-type zinc finger, nucleic acid binding protein

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	4	119,756,733 - 119,756,793	EPDNEW

Strain Variation

Strain Sequence Variants (Rnor 6.0)

ACI/EurMcwi (MCW)

Visual

CSV

TAB

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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)

Visual

CSV

TAB

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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)

Visual

CSV

TAB

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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)

Visual

CSV

TAB

Printer

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)

Visual

CSV

TAB

Printer

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)

Visual

CSV

TAB

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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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CSV

TAB

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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)

Visual

CSV

TAB

Printer

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)

Visual

CSV

TAB

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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)

Visual

CSV

TAB

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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)

Visual

CSV

TAB

Printer

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)

Visual

CSV

TAB

Printer

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)

Visual

CSV

TAB

Printer

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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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:621807	AgrOrtholog
Ensembl Genes	ENSRNOG00000010239	Ensembl, ENTREZGENE, UniProtKB/Swiss-Prot
Ensembl Protein	ENSRNOP00000013884	ENTREZGENE, UniProtKB/Swiss-Prot
Ensembl Transcript	ENSRNOT00000013884	ENTREZGENE, UniProtKB/Swiss-Prot
IMAGE_CLONE	IMAGE:6889682	IMAGE-MGC_LOAD
InterPro	Znf_CCHC	UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
	Znf_CCHC_sf	UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
KEGG Report	rno:64530	UniProtKB/Swiss-Prot
MGC_CLONE	MGC:72818	IMAGE-MGC_LOAD
NCBI Gene	64530	ENTREZGENE
Pfam	zf-CCHC	UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PhenoGen	Cnbp	PhenoGen
PROSITE	ZF_CCHC	UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
SMART	ZnF_C2HC	UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Superfamily-SCOP	SSF57756	UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
UniProt	CNBP_RAT	UniProtKB/Swiss-Prot, ENTREZGENE
	Q4AE93_RAT	UniProtKB/TrEMBL
UniProt Secondary	P20694	UniProtKB/Swiss-Prot
	Q5QJQ8	UniProtKB/Swiss-Prot

Nomenclature History

Date	Current Symbol	Current Name	Previous Symbol	Previous Name	Description	Reference	Status
2008-09-09	Cnbp	CCHC-type zinc finger, nucleic acid binding protein	Cnbp	cellular nucleic acid binding protein	Nomenclature updated to reflect human and mouse nomenclature	1299863	APPROVED
2008-02-25	Cnbp	cellular nucleic acid binding protein	Cnbp1	cellular nucleic acid binding protein 1	Nomenclature updated to reflect human and mouse nomenclature	1299863	APPROVED
2004-12-14	Cnbp1	cellular nucleic acid binding protein 1	Cnbp	cellular nucleic acid binding protein	Symbol and Name updated	1299863	APPROVED
2002-08-07	Cnbp	cellular nucleic acid binding protein			Symbol and Name status set to provisional	70820	PROVISIONAL

RGD Curation Notes

Note Type	Note	Reference
gene_function	binds G-rich single-stranded RNA and DNA in a sequence-specific manner	632384

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

Imported Disease Annotations - OMIM