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Gene: Csdc2 (cold shock domain containing C2) Rattus norvegicus

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Symbol:

Csdc2

Name:

cold shock domain containing C2

RGD ID:

628780

Description:

Enables RNA binding activity. Predicted to be involved in regulation of mRNA stability. Predicted to be located in nucleus. Predicted to be active in cytoplasm. Orthologous to human CSDC2 (cold shock domain containing C2); INTERACTS WITH 2,3,7,8-tetrachlorodibenzodioxine; 2,3,7,8-Tetrachlorodibenzofuran; alpha-Zearalanol.

Type:

protein-coding

RefSeq Status:

VALIDATED

Previously known as:

cold shock domain containing C2, RNA binding; cold shock domain-containing protein C2; Pippin; RNA-binding protein pippin

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):	CSDC2 (cold shock domain containing C2)	HGNC	EggNOG, Ensembl, HomoloGene, Inparanoid, NCBI, OMA, OrthoDB, OrthoMCL, Panther, PhylomeDB, Treefam
Mus musculus (house mouse):	Csdc2 (cold shock domain containing C2, RNA binding)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Chinchilla lanigera (long-tailed chinchilla):	Csdc2 (cold shock domain containing C2)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Pan paniscus (bonobo/pygmy chimpanzee):	CSDC2 (cold shock domain containing C2)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Canis lupus familiaris (dog):	CSDC2 (cold shock domain containing C2)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Ictidomys tridecemlineatus (thirteen-lined ground squirrel):	Csdc2 (cold shock domain containing C2)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Sus scrofa (pig):	CSDC2 (cold shock domain containing C2)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Chlorocebus sabaeus (green monkey):	CSDC2 (cold shock domain containing C2)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Heterocephalus glaber (naked mole-rat):	Csdc2 (cold shock domain containing C2)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Rattus rattus (black rat):	Csdc2 (cold shock domain containing C2)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Alliance orthologs ³
Mus musculus (house mouse):	Csdc2 (cold shock domain containing C2, RNA binding)	Alliance	DIOPT (Ensembl Compara\|Hieranoid\|InParanoid\|OMA\|OrthoFinder\|OrthoInspector\|PANTHER\|PhylomeDB\|SonicParanoid)
Homo sapiens (human):	CSDC2 (cold shock domain containing C2)	Alliance	DIOPT (Ensembl Compara\|HGNC\|Hieranoid\|InParanoid\|OMA\|OrthoFinder\|OrthoInspector\|PANTHER\|PhylomeDB\|SonicParanoid)
Danio rerio (zebrafish):	csdc2a (cold shock domain containing C2, RNA binding a)	Alliance	DIOPT (Ensembl Compara\|Hieranoid\|InParanoid\|OMA\|OrthoFinder\|OrthoInspector\|PANTHER\|PhylomeDB\|SonicParanoid)
Danio rerio (zebrafish):	csdc2a (cold shock domain containing C2, RNA binding a)	Alliance	DIOPT (Ensembl Compara\|Hieranoid\|InParanoid\|OMA\|OrthoFinder\|OrthoInspector\|PANTHER\|SonicParanoid)
Danio rerio (zebrafish):	csdc2b (cold shock domain containing C2, RNA binding b)	Alliance	DIOPT (Ensembl Compara\|OMA\|OrthoFinder\|OrthoInspector\|PANTHER)
Drosophila melanogaster (fruit fly):	CG9705	Alliance	DIOPT (Ensembl Compara\|Hieranoid\|InParanoid\|OMA\|OrthoFinder\|OrthoInspector\|PANTHER\|PhylomeDB\|SonicParanoid)
Xenopus tropicalis (tropical clawed frog):	csdc2	Alliance	DIOPT (Hieranoid\|InParanoid\|OMA\|OrthoFinder\|OrthoInspector\|PANTHER)

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	7	115,332,134 - 115,346,599 (+)	NCBI	GRCr8	GRCr8		GRCr8
GRCr8 Ensembl	7	115,332,128 - 115,346,596 (+)	Ensembl				GRCr8
mRatBN7.2	7	113,451,998 - 113,466,464 (+)	NCBI	mRatBN7.2	mRatBN7.2
mRatBN7.2 Ensembl	7	113,451,998 - 113,466,463 (+)	Ensembl				mRatBN7.2
UTH_Rnor_SHR_Utx	7	115,214,585 - 115,229,134 (+)	NCBI	UTH_Rnor_SHR_Utx	UTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0	7	117,438,075 - 117,452,628 (+)	NCBI	UTH_Rnor_SHRSP_BbbUtx_1.0	UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0	7	117,407,521 - 117,422,071 (+)	NCBI	UTH_Rnor_WKY_Bbb_1.0	UTH_Rnor_WKY_Bbb_1.0
Rnor_6.0	7	123,168,811 - 123,183,336 (+)	NCBI	Rnor_6.0	Rnor_6.0	rn6	Rnor6.0
Rnor_6.0 Ensembl	7	123,168,811 - 123,183,335 (+)	Ensembl			rn6	Rnor6.0
Rnor_5.0	7	123,144,206 - 123,158,717 (+)	NCBI	Rnor_5.0	Rnor_5.0	rn5
RGSC_v3.4	7	120,290,137 - 120,323,640 (+)	NCBI	RGSC_v3.4	RGSC_v3.4	rn4
Celera	7	109,770,665 - 109,782,328 (+)	NCBI		Celera
RGSC_v3.1	7	120,324,478 - 120,357,857 (+)	NCBI
Cytogenetic Map	7	q34	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

(S)-nicotine (ISO)

1,2,4-trichloro-5-(2,5-dichlorophenyl)benzene (ISO)

1,2-dimethylhydrazine (ISO)

2,2',4,4',5,5'-hexachlorobiphenyl (ISO)

2,2',5,5'-tetrachlorobiphenyl (ISO)

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

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

2,4,4'-trichlorobiphenyl (ISO)

4-hydroxyphenyl retinamide (ISO)

acrylamide (ISO)

actinomycin D (ISO)

aflatoxin B1 (ISO)

alpha-Zearalanol (EXP)

ammonium chloride (EXP)

beauvericin (ISO)

benzo[a]pyrene (EXP,ISO)

bisphenol A (EXP)

cadmium atom (ISO)

cadmium dichloride (EXP,ISO)

camptothecin (ISO)

cantharidin (ISO)

choline (ISO)

cisplatin (ISO)

clobetasol (ISO)

coumarin (ISO)

doxorubicin (ISO)

endosulfan (EXP)

enniatin (ISO)

ethanol (ISO)

fenvalerate (EXP)

fluoranthene (ISO)

folic acid (ISO)

gentamycin (EXP)

isoprenaline (ISO)

L-methionine (ISO)

methamphetamine (ISO)

mono(2-ethylhexyl) phthalate (ISO)

morphine (ISO)

nicotine (ISO)

Nutlin-3 (ISO)

ochratoxin A (EXP)

okadaic acid (ISO)

ozone (ISO)

paracetamol (EXP)

PCB138 (ISO)

perfluorooctanoic acid (EXP)

phenobarbital (ISO)

raloxifene (ISO)

resveratrol (ISO)

S-(1,2-dichlorovinyl)-L-cysteine (ISO)

sulforaphane (ISO)

sunitinib (ISO)

tamoxifen (ISO)

testosterone (ISO)

triclosan (ISO)

Gene Ontology Annotations Click to see Annotation Detail View

Biological Process

mRNA processing (IEA)

regulation of mRNA stability (IBA)

Cellular Component

cytoplasm (IBA,IEA)

nucleus (IEA)

Molecular Function

mRNA 3'-UTR binding (IBA)

nucleic acid binding (IEA)

protein binding (IPI)

RNA binding (IDA,IEA)

transcription factor binding (IPI)

References

References - curated

#	Reference Title	Reference Citation
1.	PIPPin, a putative RNA-binding protein specifically expressed in the rat brain.	Castiglia D, etal., Biochem Biophys Res Commun 1996 Jan 5;218(1):390-4.
2.	Identification in the rat brain of a set of nuclear proteins interacting with H1 degrees mRNA.	Di Liegro CM, etal., Neuroscience. 2013 Jan 15;229:71-6. doi: 10.1016/j.neuroscience.2012.10.072. Epub 2012 Nov 14.
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 MGI mouse gene data--August 2006	MGD data from the GO Consortium
5.	GOA pipeline	RGD automated data pipeline
6.	Data Import for Chemical-Gene Interactions	RGD automated import pipeline for gene-chemical interactions

Additional References at PubMed

PMID:8889548	PMID:10446180	PMID:10923677	PMID:12767259	PMID:17053029	PMID:30078185

Genomics

Comparative Map Data

Csdc2
(Rattus norvegicus - Norway rat)

Rat Assembly	Chr	Position (strand)	Source	Genome Browsers
Rat Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCr8	7	115,332,134 - 115,346,599 (+)	NCBI	GRCr8	GRCr8		GRCr8
GRCr8 Ensembl	7	115,332,128 - 115,346,596 (+)	Ensembl				GRCr8
mRatBN7.2	7	113,451,998 - 113,466,464 (+)	NCBI	mRatBN7.2	mRatBN7.2
mRatBN7.2 Ensembl	7	113,451,998 - 113,466,463 (+)	Ensembl				mRatBN7.2
UTH_Rnor_SHR_Utx	7	115,214,585 - 115,229,134 (+)	NCBI	UTH_Rnor_SHR_Utx	UTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0	7	117,438,075 - 117,452,628 (+)	NCBI	UTH_Rnor_SHRSP_BbbUtx_1.0	UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0	7	117,407,521 - 117,422,071 (+)	NCBI	UTH_Rnor_WKY_Bbb_1.0	UTH_Rnor_WKY_Bbb_1.0
Rnor_6.0	7	123,168,811 - 123,183,336 (+)	NCBI	Rnor_6.0	Rnor_6.0	rn6	Rnor6.0
Rnor_6.0 Ensembl	7	123,168,811 - 123,183,335 (+)	Ensembl			rn6	Rnor6.0
Rnor_5.0	7	123,144,206 - 123,158,717 (+)	NCBI	Rnor_5.0	Rnor_5.0	rn5
RGSC_v3.4	7	120,290,137 - 120,323,640 (+)	NCBI	RGSC_v3.4	RGSC_v3.4	rn4
Celera	7	109,770,665 - 109,782,328 (+)	NCBI		Celera
RGSC_v3.1	7	120,324,478 - 120,357,857 (+)	NCBI
Cytogenetic Map	7	q34	NCBI

CSDC2
(Homo sapiens - human)

Human Assembly	Chr	Position (strand)	Source	Genome Browsers
Human Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCh38	22	41,561,010 - 41,576,666 (+)	NCBI	GRCh38	GRCh38	hg38	GRCh38
GRCh38.p14 Ensembl	22	41,560,858 - 41,577,741 (+)	Ensembl			hg38	GRCh38
GRCh37	22	41,957,014 - 41,972,670 (+)	NCBI	GRCh37	GRCh37	hg19	GRCh37
Build 36	22	40,286,960 - 40,302,616 (+)	NCBI	Build 36	Build 36	hg18	NCBI36
Celera	22	25,763,426 - 25,779,097 (+)	NCBI		Celera
Cytogenetic Map	22	q13.2	NCBI
HuRef	22	24,922,829 - 24,938,486 (+)	NCBI		HuRef
CHM1_1	22	41,916,938 - 41,932,809 (+)	NCBI		CHM1_1
T2T-CHM13v2.0	22	42,039,897 - 42,055,537 (+)	NCBI		T2T-CHM13v2.0

Csdc2
(Mus musculus - house mouse)

Mouse Assembly	Chr	Position (strand)	Source	Genome Browsers
Mouse Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCm39	15	81,820,960 - 81,835,142 (+)	NCBI	GRCm39	GRCm39	mm39
GRCm39 Ensembl	15	81,820,960 - 81,835,142 (+)	Ensembl		GRCm39 Ensembl		GRCm39
GRCm38	15	81,936,759 - 81,950,941 (+)	NCBI	GRCm38	GRCm38	mm10	GRCm38
GRCm38.p6 Ensembl	15	81,936,759 - 81,950,941 (+)	Ensembl			mm10	GRCm38
MGSCv37	15	81,767,189 - 81,781,371 (+)	NCBI	MGSCv37	MGSCv37	mm9	NCBIm37
MGSCv36	15	81,764,191 - 81,778,196 (+)	NCBI		MGSCv36	mm8
Celera	15	84,057,995 - 84,072,989 (+)	NCBI		Celera
Cytogenetic Map	15	E1	NCBI
cM Map	15	38.28	NCBI

Csdc2
(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_004955413	27,079,280 - 27,090,082 (+)	Ensembl
ChiLan1.0	NW_004955413	27,079,280 - 27,090,082 (+)	NCBI	ChiLan1.0	ChiLan1.0

CSDC2
(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	23	51,391,874 - 51,408,115 (+)	NCBI		NHGRI_mPanPan1-v2
NHGRI_mPanPan1	22	54,091,148 - 54,107,382 (+)	NCBI		NHGRI_mPanPan1
Mhudiblu_PPA_v0	22	22,455,605 - 22,471,836 (+)	NCBI	Mhudiblu_PPA_v0	Mhudiblu_PPA_v0	panPan3
PanPan1.1	22	40,542,255 - 40,558,513 (+)	NCBI	PanPan1.1	PanPan1.1	panPan2
PanPan1.1 Ensembl	22	40,542,255 - 40,558,513 (+)	Ensembl			panPan2	panpan1.1

CSDC2
(Canis lupus familiaris - dog)

Dog Assembly	Chr	Position (strand)	Source	Genome Browsers
Dog Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
CanFam3.1	10	23,706,962 - 23,717,078 (-)	NCBI	CanFam3.1	CanFam3.1	canFam3	CanFam3.1
CanFam3.1 Ensembl	10	23,709,176 - 23,711,093 (-)	Ensembl			canFam3	CanFam3.1
Dog10K_Boxer_Tasha	10	23,639,685 - 23,651,642 (-)	NCBI	Dog10K_Boxer_Tasha	Dog10K_Boxer_Tasha
ROS_Cfam_1.0	10	24,451,816 - 24,461,938 (-)	NCBI	ROS_Cfam_1.0	ROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl	10	24,451,819 - 24,463,801 (-)	Ensembl				ROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.1	10	24,168,636 - 24,178,747 (-)	NCBI		UMICH_Zoey_3.1
UNSW_CanFamBas_1.0	10	24,489,855 - 24,499,957 (-)	NCBI		UNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0	10	24,663,942 - 24,674,057 (-)	NCBI	UU_Cfam_GSD_1.0	UU_Cfam_GSD_1.0

Csdc2
(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_024404945	7,357,797 - 7,361,402 (-)	NCBI		HiC_Itri_2
SpeTri2.0 Ensembl	NW_004936492	368,223 - 374,855 (-)	Ensembl		SpeTri2.0 Ensembl
SpeTri2.0	NW_004936492	368,211 - 371,834 (-)	NCBI	SpeTri2.0	SpeTri2.0		SpeTri2.0

CSDC2
(Sus scrofa - pig)

Pig Assembly	Chr	Position (strand)	Source	Genome Browsers
Pig Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
Sscrofa11.1 Ensembl	5	6,975,844 - 6,988,366 (-)	Ensembl			susScr11	Sscrofa11.1
Sscrofa11.1	5	6,976,121 - 6,988,604 (-)	NCBI	Sscrofa11.1	Sscrofa11.1	susScr11	Sscrofa11.1
Sscrofa10.2	5	4,349,492 - 4,351,976 (-)	NCBI	Sscrofa10.2	Sscrofa10.2	susScr3

CSDC2
(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	19	24,102,231 - 24,117,242 (+)	NCBI	ChlSab1.1	ChlSab1.1	chlSab2
ChlSab1.1 Ensembl	19	24,112,447 - 24,115,453 (+)	Ensembl		ChlSab1.1 Ensembl	chlSab2	Vervet-AGM
Vero_WHO_p1.0	NW_023666045	101,297,051 - 101,312,660 (-)	NCBI	Vero_WHO_p1.0	Vero_WHO_p1.0

Csdc2
(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_004624752	7,047,271 - 7,058,830 (-)	Ensembl		HetGla_female_1.0 Ensembl	hetGla2	HetGla_female_1.0 Ensembl
HetGla 1.0	NW_004624752	7,047,262 - 7,058,818 (-)	NCBI	HetGla 1.0	HetGla 1.0	hetGla2

Csdc2
(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	1	251,674,802 - 251,688,985 (+)	NCBI		Rrattus_CSIRO_v1

Variants

Variants in Csdc2
80 total Variants

miRNA Target Status (No longer updated)

Predicted Target Of

	Summary Value
Count of predictions:	235
Count of miRNA genes:	136
Interacting mature miRNAs:	173
Transcripts:	ENSRNOT00000007091
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 (GRCr8)

The following QTLs overlap with this region.

RGD ID	Symbol	Name	LOD	P Value	Trait	Sub Trait	Chr	Start	Stop	Species
1300179	Kidm5	Kidney mass QTL 5	3.51		kidney mass (VT:0002707)	left kidney wet weight (CMO:0000083)	7	92388565	119280177	Rat
1331728	Bp214	Blood pressure QTL 214	2.825		arterial blood pressure trait (VT:2000000)	mean arterial blood pressure (CMO:0000009)	7	82111245	123048330	Rat
1331731	Bp216	Blood pressure QTL 216	2.851		arterial blood pressure trait (VT:2000000)	mean arterial blood pressure (CMO:0000009)	7	104186212	135371468	Rat
70159	Bp61	Blood pressure QTL 61		0.0001	arterial blood pressure trait (VT:2000000)	systolic blood pressure (CMO:0000004)	7	73618702	118618702	Rat
631687	Hcas1	Hepatocarcinoma susceptibility QTL 1	3.9	0.001	liver integrity trait (VT:0010547)	liver tumorous lesion volume to total liver volume ratio (CMO:0001082)	7	93302009	131686183	Rat
61397	Bw17	Body weight QTL 17	6.3		body mass (VT:0001259)	body weight (CMO:0000012)	7	95485047	137014596	Rat
1358914	Bp266	Blood pressure QTL 266			arterial blood pressure trait (VT:2000000)	mean arterial blood pressure (CMO:0000009)	7	115313999	136544683	Rat
631504	Cm27	Cardiac mass QTL 27	3.45		heart left ventricle mass (VT:0007031)	heart left ventricle wet weight (CMO:0000071)	7	46307490	127866166	Rat
634322	Bw12	Body weight QTL 12	0		body mass (VT:0001259)	body weight (CMO:0000012)	7	85043242	130043242	Rat
70173	Niddm19	Non-insulin dependent diabetes mellitus QTL 19	4.33	0.00005	blood glucose amount (VT:0000188)	blood glucose level area under curve (AUC) (CMO:0000350)	7	85497398	130497398	Rat
1549899	Stresp8	Stress response QTL 8	4.37	0.0008	stress-related behavior trait (VT:0010451)	defensive burying duration (CMO:0001961)	7	92362341	137014596	Rat
2317052	Aia17	Adjuvant induced arthritis QTL 17	2.13		joint integrity trait (VT:0010548)	left rear ankle joint diameter (CMO:0002149)	7	83626689	128626689	Rat
631529	Tls2	T-lymphoma susceptibility QTL 2	0	0.001	thymus integrity trait (VT:0010555)	percentage of study population developing T-cell lymphomas during a period of time (CMO:0001911)	7	82111382	132099989	Rat
731176	Glom5	Glomerulus QTL 5	2.5	0.0035	kidney glomerulus morphology trait (VT:0005325)	count of superficial glomeruli not directly contacting the kidney surface (CMO:0001002)	7	98549867	137014596	Rat
7411607	Foco15	Food consumption QTL 15		0.001	eating behavior trait (VT:0001431)	feed conversion ratio (CMO:0001312)	7	77807807	122807807	Rat
631201	Panci1	Pancreas inflammation QTL 1	0	0.001	pancreas integrity trait (VT:0010560)	percentage of study population displaying chronic pancreatitis at a point in time (CMO:0001214)	7	73557047	118557047	Rat
634336	Anxrr17	Anxiety related response QTL 17	3.66		locomotor behavior trait (VT:0001392)	number of entries into a discrete space in an experimental apparatus (CMO:0000960)	7	1509236	116977875	Rat
1331768	Kidm10	Kidney mass QTL 10	4.62096		kidney mass (VT:0002707)	left kidney wet weight (CMO:0000083)	7	82111245	123048330	Rat
61357	Bp38	Blood pressure QTL 38	1.6	0.052	arterial blood pressure trait (VT:2000000)	systolic blood pressure (CMO:0000004)	7	40540077	123682549	Rat
2313102	Bmd79	Bone mineral density QTL 79	2.3	0.0001	tibia mineral mass (VT:1000283)	total volumetric bone mineral density (CMO:0001728)	7	96700404	118618702	Rat
2316947	Rf58	Renal function QTL 58	7.8		kidney glomerulus morphology trait (VT:0005325)	index of glomerular damage (CMO:0001135)	7	49682832	115766396	Rat
1331748	Bp215	Blood pressure QTL 215	4.043		arterial blood pressure trait (VT:2000000)	mean arterial blood pressure (CMO:0000009)	7	110725024	135371468	Rat
10450862	Kidm55	Kidney mass QTL 55	4.9		kidney mass (VT:0002707)	kidney weight (CMO:0000081)	7	72725037	117725037	Rat
61428	Scl3	Serum cholesterol level QTL 3	3.2		blood cholesterol amount (VT:0000180)	serum total cholesterol level (CMO:0000363)	7	100548246	137014596	Rat
1331746	Kidm9	Kidney mass QTL 9	3.934		kidney mass (VT:0002707)	right kidney wet weight (CMO:0000082)	7	82111245	134948181	Rat
10450856	Livw4	Liver weight QTL 4	3.8		liver mass (VT:0003402)	liver weight (CMO:0000092)	7	72725037	117725037	Rat
7411654	Foco25	Food consumption QTL 25	9.3	0.001	eating behavior trait (VT:0001431)	feed conversion ratio (CMO:0001312)	7	77807807	122807807	Rat
2316955	Stl24	Serum triglyceride level QTL 24	7.1		blood triglyceride amount (VT:0002644)	plasma triglyceride level (CMO:0000548)	7	49682832	115766396	Rat
10402855	Bp379	Blood pressure QTL 379		0.21	arterial blood pressure trait (VT:2000000)	mean arterial blood pressure (CMO:0000009)	7	78682549	123682549	Rat
2316952	Pur22	Proteinuria QTL 22	5.2		urine protein amount (VT:0005160)	urine protein level (CMO:0000591)	7	49682832	115766396	Rat
631540	Bw9	Body weight QTL 9	4.5		body mass (VT:0001259)	body weight (CMO:0000012)	7	71621154	119349044	Rat
1358891	Bp265	Blood pressure QTL 265	2.21		arterial blood pressure trait (VT:2000000)	mean arterial blood pressure (CMO:0000009)	7	71827901	136544683	Rat

Markers in Region

D7Got107

Rat Assembly	Chr	Position (strand)	Source	JBrowse
mRatBN7.2	7	113,442,426 - 113,442,598 (+)	MAPPER	mRatBN7.2
Rnor_6.0	7	123,159,241 - 123,159,412	NCBI	Rnor6.0
Rnor_5.0	7	123,134,636 - 123,134,807	UniSTS	Rnor5.0
RGSC_v3.4	7	120,280,576 - 120,280,748	RGD	RGSC3.4
RGSC_v3.4	7	120,280,577 - 120,280,748	UniSTS	RGSC3.4
Celera	7	109,761,095 - 109,761,266	UniSTS
RGSC_v3.1	7	120,314,807 - 120,314,978	RGD
RH 3.4 Map	7	887.1	RGD
RH 3.4 Map	7	887.1	UniSTS
Cytogenetic Map	7	q34	UniSTS

RH134328

Rat Assembly	Chr	Position (strand)	Source	JBrowse
mRatBN7.2	7	113,466,027 - 113,466,209 (+)	MAPPER	mRatBN7.2
Rnor_6.0	7	123,182,900 - 123,183,081	NCBI	Rnor6.0
Rnor_5.0	7	123,158,281 - 123,158,462	UniSTS	Rnor5.0
RGSC_v3.4	7	120,323,204 - 120,323,385	UniSTS	RGSC3.4
Celera	7	109,781,892 - 109,782,073	UniSTS
RH 3.4 Map	7	887.3	UniSTS
Cytogenetic Map	7	q34	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	160	88	87	56	88	56	6	349	188	11	139	81	92	31	17	17

Sequence

Nucleotide Sequences


RefSeq Transcripts	NM_001170542	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	XM_039078503	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	XM_039078504	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	XM_063263067	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	XM_063263068	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
GenBank Nucleotide	AC096601	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	CH473950	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	CK844327	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	CO401519	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	CO405729	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	DY318921	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	JAXUCZ010000007	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	X89962	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles

Ensembl Acc Id:

ENSRNOT00000007091 ⟹ ENSRNOP00000007091

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
GRCr8 Ensembl	7	115,332,128 - 115,346,596 (+)	Ensembl
mRatBN7.2 Ensembl	7	113,451,998 - 113,466,463 (+)	Ensembl
Rnor_6.0 Ensembl	7	123,168,811 - 123,183,335 (+)	Ensembl

Ensembl Acc Id:

ENSRNOT00000161236 ⟹ ENSRNOP00000102835

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
GRCr8 Ensembl	7	115,332,182 - 115,346,596 (+)	Ensembl

RefSeq Acc Id:

NM_001170542 ⟹ NP_001164013

RefSeq Status:

VALIDATED

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
GRCr8	7	115,332,134 - 115,346,599 (+)	NCBI
mRatBN7.2	7	113,451,998 - 113,466,464 (+)	NCBI
Rnor_6.0	7	123,168,811 - 123,183,336 (+)	NCBI
Rnor_5.0	7	123,144,206 - 123,158,717 (+)	NCBI
Celera	7	109,770,665 - 109,782,328 (+)	NCBI

Sequence:

show sequence

AGGGCGTGTGTGAGTGAGTGAGTGAGGGGCTGAGGTGCCTCCTGCACACACACACACACACACA
CACACACGCGCGCGCGCGCGCGCCACGGAGAGTGCATCATCCAGACGTGACCCTTGCCAGCCAG
CTCCACGGTCCAGAGAGATCGGGTGCTGCCCACTACAGGAGACAGTACCTGGACCCAGCTGCCA
GGGCGAGACGGAGTCCATAGCTGGTGAGGCCAGTGAGCAGGGCGAGGCCAGGCCCTGCCCGGAA
GGACACCAGAGTCCTTCACCGGCCCCTGTGCTCCAGAGCCCTCCCGGCTCTCCTGCTGGCCCCG
CCATGACATCAGAGTCTACATCACCTCCGGTGGTGCCACCTCTGCACTCCCCCAAGTCCCCTGT
CTGGCCCACTTTCCCCTTCCACAGGGAGAGCAGTAGGATCTGGGAACGTGGTGGTGGCGTCTCT
CCTCGGGACCTGCCCAGCCCTTTGCCTACCAAACGGACCAGGACATACTCCGCGACAGCTCGAG
CCTCGGCTGGCCCTGTGTTCAAGGGCGTCTGTAAGCAGTTCTCACGCTCCCAGGGCCACGGCTT
CATCACGCCTGAGAATGGCTCCGAGGACATCTTCGTGCATGTTTCTGACATCGAGGGGGAGTAC
GTGCCCGTAGAAGGAGATGAGGTGACCTACAAGATGTGTCCCATCCCACCCAAGAACCAGAAGT
TTCAGGCTGTGGAGGTGGTGCTCACCCAGTTGGCTCCTCATACCCCCCACGAGACATGGTCTGG
CCAGGTTGTGGGATCCTAGTCAGGATCCTCCCACAAGAAGGCAGGCAGCAGCCAGTCTGTGCCC
CCACTGTGCTGCTGACCAGCCCTTGGGTGAGCTTGTTTGTCCGCCTGTCTGTCTGTGCTTGTGG
CTGTGAATGTGTGCTTCCACCTGTGACCCATGACCTGTATGATCCGGCCTAGGGTTGGATGGAG
TGCAGCTACCAGCCCCGCCTTGGCCTGTCTCTCCTTCCTCCCAACTCTGTCACGTAAACATACC
TTCTCCCCCTCTTGCCCACTATCTATATACTGAGTCTCTGTGGGTCTGCGTCATGTTCTTGAGA
ACCCAGGGGGACCCCTCTCCTGTGAGCCCATTCCTCACTGCTGTCCTCAGATCTACCGTCTCCA
GTCCCCAGGCCTGTCTGCTTACGTCCCTGTCTCCAGTGCTGGACCTGGGTGTCTGCCACACCTG
GACTCGTCCTCAGAAGCCAGGCCCCTGAGTGCTTTGTAGGGGCCTCCTTTAGGGAGGAAGAGGG
CAAACCATGGAGGTTCATGGCCAGTCCCTGCTAAAACCTAGCTCATCTTCCTGTCCCCACCCGT
TTGGTGCCCTGAAGAGAACACAGCTGCGAGCAGGAGGGAACTGAGGCACTCCTGTTGTGTAGGC
CAGTCCTCTCTCCTCAGCTAGCAGATGATCTTTCAAGCCCACAGAGCTAAGGTCCCTCACTCTG
AGGTGAGGAGGGGACATGGTTTCCTCCAGCTTGCTTGGGCAGAACCGTCTCTTCTGCTGGGATG
CCCAAACCCTGTGGATGCTCTGCCCAGTGCTGGCCACCACAGCAGCTAAGGATGCAGCGACAGA
CTGACATGTCACCTCAGGCAAGGCCAGGTCCAGACACCCCAAAAGAATGGTCCTCAGCCAGGGA
GACCACTGGCCTTGCCCCTCTGCTCCCATTAGACACATTTCCCAGAGCTATGCAATGGCTCTAA
GTCCCTGACAGGTCAGCAGCTGAGGTGGCTCTTATCCCGTTCATCCCAAAGTGTGACTGTCCCT
CTTACCTGGAGTCCCTTTGGAGTTAAGATGTGTCCCCTCTAGAGAGCCCATTACTTAATGAGAG
GATAAGGGCCTGACACAATAATGACCTTTATGAGACCCAGTCTGGAAGTAAAATGTGAGCACAG
ATGGCCGGGATGAAGGGGTCAGTGGTTGTCTAGGTGGCCTTGTAGGTGTTCCGGGACCACAGGG
TAATCATTTGGGGCATTTGCACCCCAACTTGGCCTAGCACCCTTTGCACAGAGCCCAGCAACTT
AGAGCTGCTAACAAGTGCTGGCCAGTCCTCCACCCTAGGAAGGACCTGTCTGACACCCCACTGT
GAACGAGGATTCTCCAGCAAGGCCTGTCCCTGGAGAACGGTCCTCGGCAAGCTTGAGGACCTGA
GTTCAAATCTCCAGCATGCCTGTAACCCAGTATTGGGTGATAAGACATAGGCCTTTGACAAGAA
CTTATTGGTTCAGGTGAACCCCAAGGCCACCCAGGCCTCCCTGTTGTGAGTAGGTCCTTTGCAG
CCATCACCCTGAGGCTGCCTTAGTGGTGGGGACAACAGGCCTCCTCCCTACTCTTGGGCCCTGC
AGTGCCCAGTCAGAAACTTCTCCACTCAGACCCCAGCCACGGATTCCCCAACCCTCCTAACACT
GGCAATAAACTCAACTGTGACCCACTCTGCCCCTGAAAAAAAAAAAAAAAAAA

hide sequence

RefSeq Acc Id:

XM_039078503 ⟹ XP_038934431

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
GRCr8	7	115,332,426 - 115,344,749 (+)	NCBI
mRatBN7.2	7	113,452,360 - 113,464,614 (+)	NCBI

RefSeq Acc Id:

XM_039078504 ⟹ XP_038934432

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
GRCr8	7	115,332,426 - 115,342,983 (+)	NCBI
mRatBN7.2	7	113,452,360 - 113,462,778 (+)	NCBI

RefSeq Acc Id:

XM_063263067 ⟹ XP_063119137

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
GRCr8	7	115,332,429 - 115,346,599 (+)	NCBI

RefSeq Acc Id:

XM_063263068 ⟹ XP_063119138

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
GRCr8	7	115,332,426 - 115,344,391 (+)	NCBI

Protein Sequences


Protein RefSeqs	NP_001164013	(Get FASTA)	NCBI Sequence Viewer
	XP_038934431	(Get FASTA)	NCBI Sequence Viewer
	XP_038934432	(Get FASTA)	NCBI Sequence Viewer
	XP_063119137	(Get FASTA)	NCBI Sequence Viewer
	XP_063119138	(Get FASTA)	NCBI Sequence Viewer
GenBank Protein	CAA62001	(Get FASTA)	NCBI Sequence Viewer
	EDM15689	(Get FASTA)	NCBI Sequence Viewer
Ensembl Protein	ENSRNOP00000007091
	ENSRNOP00000007091.5
	ENSRNOP00000102835
GenBank Protein	Q63430	(Get FASTA)	NCBI Sequence Viewer

RefSeq Acc Id:	NP_001164013 ⟸ NM_001170542
- UniProtKB:	Q63430 (UniProtKB/Swiss-Prot), A6HT33 (UniProtKB/TrEMBL)
- Sequence:	show sequence MTSESTSPPVVPPLHSPKSPVWPTFPFHRESSRIWERGGGVSPRDLPSPLPTKRTRTYSATARA SAGPVFKGVCKQFSRSQGHGFITPENGSEDIFVHVSDIEGEYVPVEGDEVTYKMCPIPPKNQKF QAVEVVLTQLAPHTPHETWSGQVVGS hide sequence

Ensembl Acc Id:

ENSRNOP00000007091 ⟸ ENSRNOT00000007091

RefSeq Acc Id:	XP_038934431 ⟸ XM_039078503
- Peptide Label:	isoform X2

RefSeq Acc Id:	XP_038934432 ⟸ XM_039078504
- Peptide Label:	isoform X4

RefSeq Acc Id:	XP_063119138 ⟸ XM_063263068
- Peptide Label:	isoform X3

RefSeq Acc Id:	XP_063119137 ⟸ XM_063263067
- Peptide Label:	isoform X1

Ensembl Acc Id:

ENSRNOP00000102835 ⟸ ENSRNOT00000161236

Protein Domains

CSD

Protein Structures

Name	Modeler	Protein Id	AA Range	Protein Structure
AF-Q63430-F1-model_v2	AlphaFold	Q63430	1-154	view protein structure

Transcriptome

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

Promoters

RGD ID:

13695520

Promoter ID:

EPDNEW_R6045

Type:

single initiation site

Name:

Csdc2_1

Description:

cold shock domain containing C2

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	7	123,168,903 - 123,168,963	EPDNEW

Additional Information

External Database Links

Database	Acc Id	Source(s)
AGR Gene	RGD:628780	AgrOrtholog
BioCyc Gene	G2FUF-32654	BioCyc
Ensembl Genes	ENSRNOG00000005332	Ensembl, ENTREZGENE, UniProtKB/Swiss-Prot
Ensembl Transcript	ENSRNOT00000007091	ENTREZGENE
	ENSRNOT00000007091.7	UniProtKB/Swiss-Prot
	ENSRNOT00000161236	ENTREZGENE
Gene3D-CATH	2.40.50.140	UniProtKB/Swiss-Prot
InterPro	Ca-reg_mRNA-binding_domain	UniProtKB/Swiss-Prot
	CSD	UniProtKB/Swiss-Prot
	CSD_1	UniProtKB/Swiss-Prot
	CSP_DNA-bd	UniProtKB/Swiss-Prot
	NA-bd_OB-fold	UniProtKB/Swiss-Prot
KEGG Report	rno:266600	UniProtKB/Swiss-Prot
NCBI Gene	266600	ENTREZGENE
PANTHER	CALCIUM-REGULATED HEAT STABLE PROTEIN CRHSP-24-RELATED	UniProtKB/Swiss-Prot
	COLD SHOCK DOMAIN-CONTAINING PROTEIN C2	UniProtKB/Swiss-Prot
Pfam	CSD	UniProtKB/Swiss-Prot
PhenoGen	Csdc2	PhenoGen
PROSITE	CSD_1	UniProtKB/Swiss-Prot
	CSD_2	UniProtKB/Swiss-Prot
RatGTEx	ENSRNOG00000005332	RatGTEx
SMART	CSP	UniProtKB/Swiss-Prot
Superfamily-SCOP	SSF50249	UniProtKB/Swiss-Prot
UniProt	A0ABK0LP13_RAT	UniProtKB/TrEMBL
	A6HT33	ENTREZGENE, UniProtKB/TrEMBL
	CSDC2_RAT	UniProtKB/Swiss-Prot, ENTREZGENE

Nomenclature History

Date	Current Symbol	Current Name	Previous Symbol	Previous Name	Description	Reference	Status
2016-03-08	Csdc2	cold shock domain containing C2	Csdc2	cold shock domain containing C2, RNA binding	Nomenclature updated to reflect human and mouse nomenclature	1299863	APPROVED
2006-03-30	Csdc2	cold shock domain containing C2, RNA binding	Pippin	RNA-binding protein pippin	Symbol and Name updated	1299863	APPROVED
2005-01-20	Pippin	RNA-binding protein pippin		PIPPin protein	Name updated	1299863	APPROVED
2003-02-27	Pippin	PIPPin protein			Symbol and Name status set to provisional	70820	PROVISIONAL

RGD Curation Notes

Note Type	Note	Reference
gene_domains	contains two potential double stranded RNA binding domains	729491

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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