Csrnp3 (cysteine and serine rich nuclear protein 3)

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Gene: Csrnp3 (cysteine and serine rich nuclear protein 3) Rattus norvegicus

Analyze

Symbol:

Csrnp3

Name:

cysteine and serine rich nuclear protein 3

RGD ID:

1306214

Description:

Predicted to have DNA-binding transcription activator activity, RNA polymerase II-specific and sequence-specific DNA binding activity. Predicted to be involved in negative regulation of phosphatase activity; positive regulation of apoptotic process; and positive regulation of transcription by RNA polymerase II. Predicted to localize to nucleus. Orthologous to human CSRNP3 (cysteine and serine rich nuclear protein 3); INTERACTS WITH 17alpha-ethynylestradiol; 2,3,7,8-Tetrachlorodibenzofuran; acetamide.

Type:

protein-coding

RefSeq Status:

PROVISIONAL

Also known as:

Csnrp3; cysteine-serine-rich nuclear protein 3; cysteine/serine-rich nuclear protein 3; LOC311093; RGD1306214; similar to TGF-beta induced apotosis protein 2

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	3	50,498,379 - 50,695,598 (+)	NCBI
Rnor_6.0 Ensembl	3	51,883,559 - 52,120,290 (+)	Ensembl	Rnor6.0		rn6	Rnor6.0
Rnor_6.0	3	51,883,559 - 52,120,290 (+)	NCBI	Rnor6.0	Rnor_6.0	rn6	Rnor6.0
Rnor_5.0	3	58,517,979 - 58,753,059 (+)	NCBI	Rnor5.0	Rnor_5.0	rn5	Rnor5.0
RGSC_v3.4	3	47,877,014 - 47,972,981 (+)	NCBI	RGSC3.4		rn4	RGSC3.4
RGSC_v3.1	3	47,773,070 - 47,870,041 (+)	NCBI
Celera	3	50,091,668 - 50,271,757 (+)	NCBI		Celera
Cytogenetic Map	3	q21	NCBI

JBrowse:

View Region in Genome Browser (JBrowse)

Model

Annotation Click to see Annotation Detail View

Disease Annotations Click to see Annotation Detail View

developmental and epileptic encephalopathy (ISO)

early infantile epileptic encephalopathy (ISO)

epilepsy (ISO)

generalized epilepsy with febrile seizures plus 7 (ISO)

hereditary sensory and autonomic neuropathy type 2A (ISO)

hereditary sensory neuropathy (ISO)

Spontaneous Abortions (ISO)

substance-related disorder (ISO)

syringomyelia (ISO)

Gene-Chemical Interaction Annotations Click to see Annotation Detail View

17alpha-ethynylestradiol (EXP)

17beta-estradiol (ISO)

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

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

acetamide (EXP)

aflatoxin B1 (EXP)

all-trans-retinoic acid (ISO)

antirheumatic drug (ISO)

atrazine (EXP)

benzo[a]pyrene (ISO)

bisphenol A (EXP,ISO)

copper atom (ISO)

copper(0) (ISO)

cyclosporin A (ISO)

DDT (EXP)

dibutyl phthalate (EXP)

diclofenac (EXP)

dorsomorphin (ISO)

doxorubicin (ISO)

entinostat (ISO)

ethanol (ISO)

folic acid (ISO)

furan (EXP)

hydroquinone (ISO)

lead(0) (ISO)

lead(2+) (ISO)

methylmercury chloride (ISO)

N-methyl-4-phenylpyridinium (ISO)

nickel atom (ISO)

panobinostat (ISO)

paracetamol (ISO)

pirinixic acid (ISO)

SB 431542 (ISO)

Soman (EXP)

sunitinib (ISO)

torcetrapib (ISO)

trichostatin A (ISO)

triptonide (ISO)

valproic acid (EXP,ISO)

vinclozolin (EXP)

Gene Ontology Annotations Click to see Annotation Detail View

Biological Process

positive regulation of apoptotic process (ISO)

positive regulation of transcription by RNA polymerase II (ISO)

regulation of transcription by RNA polymerase II (IBA)

Cellular Component

nucleus (IBA,ISO)

Molecular Function

DNA-binding transcription activator activity, RNA polymerase II-specific (ISO)

DNA-binding transcription factor activity (ISO)

DNA-binding transcription factor activity, RNA polymerase II-specific (IBA)

sequence-specific DNA binding (IBA,ISO)

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.	RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
3.	RGD automated import pipeline for gene-chemical interactions

Additional References at PubMed

PMID:17726538	PMID:18291095	PMID:19389623

Genomics

Comparative Map Data

Csrnp3
(Rattus norvegicus - Norway rat)

Rat Assembly	Chr	Position (strand)	Source	Genome Browsers
Rat Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
mRatBN7.2	3	50,498,379 - 50,695,598 (+)	NCBI
Rnor_6.0 Ensembl	3	51,883,559 - 52,120,290 (+)	Ensembl	Rnor6.0		rn6	Rnor6.0
Rnor_6.0	3	51,883,559 - 52,120,290 (+)	NCBI	Rnor6.0	Rnor_6.0	rn6	Rnor6.0
Rnor_5.0	3	58,517,979 - 58,753,059 (+)	NCBI	Rnor5.0	Rnor_5.0	rn5	Rnor5.0
RGSC_v3.4	3	47,877,014 - 47,972,981 (+)	NCBI	RGSC3.4		rn4	RGSC3.4
RGSC_v3.1	3	47,773,070 - 47,870,041 (+)	NCBI
Celera	3	50,091,668 - 50,271,757 (+)	NCBI		Celera
Cytogenetic Map	3	q21	NCBI

CSRNP3
(Homo sapiens - human)

Human Assembly	Chr	Position (strand)	Source	Genome Browsers
Human Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCh38.p13 Ensembl	2	165,469,647 - 165,689,407 (+)	Ensembl	GRCh38		hg38	GRCh38
GRCh38	2	165,469,680 - 165,689,407 (+)	NCBI	GRCh38	GRCh38	hg38	GRCh38
GRCh37	2	166,326,208 - 166,545,917 (+)	NCBI	GRCh37	GRCh37	hg19	GRCh37
Build 36	2	166,137,136 - 166,245,458 (+)	NCBI	NCBI36		hg18	NCBI36
Celera	2	159,936,725 - 160,155,865 (+)	NCBI
Cytogenetic Map	2	q24.3	NCBI
HuRef	2	158,208,131 - 158,427,753 (+)	NCBI		HuRef
CHM1_1	2	166,331,798 - 166,552,214 (+)	NCBI		CHM1_1

Csrnp3
(Mus musculus - house mouse)

Mouse Assembly	Chr	Position (strand)	Source	Genome Browsers
Mouse Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCm39	2	65,675,628 - 65,866,958 (+)	NCBI	GRCm39		mm39
GRCm39 Ensembl	2	65,676,111 - 65,861,890 (+)	Ensembl
GRCm38	2	65,845,284 - 66,036,614 (+)	NCBI	GRCm38	GRCm38	mm10	GRCm38
GRCm38.p6 Ensembl	2	65,845,767 - 66,031,546 (+)	Ensembl	GRCm38		mm10	GRCm38
MGSCv37	2	65,683,824 - 65,869,603 (+)	NCBI	GRCm37		mm9	NCBIm37
MGSCv36	2	65,646,681 - 65,824,298 (+)	NCBI			mm8
Celera	2	67,525,836 - 67,711,310 (+)	NCBI		Celera
Cytogenetic Map	2	C1.3	NCBI

Csrnp3
(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_004955449	8,460,577 - 8,635,417 (-)	Ensembl	ChiLan1.0
ChiLan1.0	NW_004955449	8,450,292 - 8,635,393 (-)	NCBI	ChiLan1.0	ChiLan1.0

CSRNP3
(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	2B	170,103,604 - 170,311,348 (+)	NCBI	panpan1.1	PanPan1.1	panPan2
PanPan1.1 Ensembl	2B	170,122,687 - 170,311,348 (+)	Ensembl	panpan1.1		panPan2
Mhudiblu_PPA_v0	2B	52,744,717 - 52,962,741 (+)	NCBI	Mhudiblu_PPA_v0		panPan3

CSRNP3
(Canis lupus familiaris - dog)

Dog Assembly	Chr	Position (strand)	Source	Genome Browsers
Dog Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
CanFam3.1	36	10,664,555 - 10,863,366 (+)	NCBI	CanFam3.1	CanFam3.1	canFam3	CanFam3.1
CanFam3.1 Ensembl	36	10,664,365 - 10,850,520 (+)	Ensembl	CanFam3.1		canFam3	CanFam3.1
Dog10K_Boxer_Tasha	36	10,809,377 - 10,998,552 (+)	NCBI
ROS_Cfam_1.0	36	10,798,782 - 10,988,138 (+)	NCBI
UMICH_Zoey_3.1	36	10,880,583 - 11,069,834 (+)	NCBI
UNSW_CanFamBas_1.0	36	10,852,565 - 11,042,335 (+)	NCBI
UU_Cfam_GSD_1.0	36	10,965,349 - 11,154,675 (+)	NCBI

Csrnp3
(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	127,844,785 - 127,988,598 (+)	NCBI
SpeTri2.0	NW_004936469	13,628,830 - 13,808,970 (-)	NCBI	SpeTri2.0	SpeTri2.0		SpeTri2.0

CSRNP3
(Sus scrofa - pig)

Pig Assembly	Chr	Position (strand)	Source	Genome Browsers
Pig Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
Sscrofa11.1 Ensembl	15	72,040,851 - 72,236,464 (+)	Ensembl	Sscrofa11.1		susScr11	Sscrofa11.1
Sscrofa11.1	15	72,040,854 - 72,242,269 (+)	NCBI	Sscrofa11.1	Sscrofa11.1	susScr11	Sscrofa11.1
Sscrofa10.2	15	80,471,002 - 80,672,885 (+)	NCBI	Sscrofa10.2	Sscrofa10.2	susScr3

CSRNP3
(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	10	50,967,138 - 51,184,378 (+)	NCBI
ChlSab1.1 Ensembl	10	51,073,480 - 51,182,389 (+)	Ensembl
Vero_WHO_p1.0	NW_023666040	148,332,089 - 148,543,145 (-)	NCBI

Csrnp3
(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_004624787	3,308,502 - 3,506,450 (+)	NCBI

Position Markers

D3Rat43

Rat Assembly	Chr	Position (strand)	Source	JBrowse
mRatBN7.2	3	50,534,264 - 50,534,572 (+)	MAPPER
Rnor_6.0	3	51,919,538 - 51,919,845	NCBI	Rnor6.0
Rnor_5.0	3	58,554,011 - 58,554,318	UniSTS	Rnor5.0
RGSC_v3.4	3	47,821,523 - 47,821,830	UniSTS	RGSC3.4
RGSC_v3.4	3	47,821,522 - 47,821,830	RGD	RGSC3.4
RGSC_v3.1	3	47,717,895 - 47,718,202	RGD
Celera	3	50,127,223 - 50,127,530	UniSTS
RH 3.4 Map	3	622.5	RGD
RH 3.4 Map	3	622.5	UniSTS
RH 2.0 Map	3	401.2	RGD
SHRSP x BN Map	3	35.0198	RGD
Cytogenetic Map	3	q21	UniSTS

AU046972

Rat Assembly	Chr	Position (strand)	Source	JBrowse
mRatBN7.2	3	50,531,350 - 50,531,440 (+)	MAPPER
mRatBN7.2	3	50,530,114 - 50,531,440 (+)	MAPPER
Rnor_6.0	3	51,916,624 - 51,916,713	NCBI	Rnor6.0
Rnor_6.0	3	51,915,388 - 51,916,713	NCBI	Rnor6.0
Rnor_5.0	3	58,551,097 - 58,551,186	UniSTS	Rnor5.0
Rnor_5.0	3	58,549,861 - 58,551,186	UniSTS	Rnor5.0
RGSC_v3.4	3	47,818,609 - 47,818,698	UniSTS	RGSC3.4
RGSC_v3.4	3	47,817,373 - 47,818,698	UniSTS	RGSC3.4
Celera	3	50,123,073 - 50,124,398	UniSTS
Celera	3	50,124,309 - 50,124,398	UniSTS
Cytogenetic Map	3	q21	UniSTS

AU046874

Rat Assembly	Chr	Position (strand)	Source	JBrowse
mRatBN7.2	16	20,314,057 - 20,314,228 (+)	MAPPER
mRatBN7.2	16	20,314,057 - 20,314,228 (-)	MAPPER
Rnor_6.0	16	21,916,738 - 21,916,908	NCBI	Rnor6.0
Rnor_6.0	3	52,067,014 - 52,067,184	NCBI	Rnor6.0
Rnor_5.0	16	21,829,705 - 21,829,875	UniSTS	Rnor5.0
Rnor_5.0	3	58,700,774 - 58,700,944	UniSTS	Rnor5.0
Celera	16	20,116,859 - 20,117,037	UniSTS
Cytogenetic Map	3	q21	UniSTS

AU049744

Rat Assembly	Chr	Position (strand)	Source	JBrowse
mRatBN7.2	16	20,344,700 - 20,344,872 (-)	MAPPER
mRatBN7.2	16	20,344,700 - 20,344,872 (+)	MAPPER
mRatBN7.2	16	20,134,574 - 20,134,742 (-)	MAPPER
Rnor_6.0	3	52,048,683 - 52,048,852	NCBI	Rnor6.0
Rnor_6.0	16	21,884,634 - 21,884,801	NCBI	Rnor6.0
Rnor_5.0	3	58,681,470 - 58,681,639	UniSTS	Rnor5.0
Rnor_5.0	16	21,797,504 - 21,797,671	UniSTS	Rnor5.0
Cytogenetic Map	3	q21	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
2290452	Scl56	Serum cholesterol level QTL 56	2.26		blood cholesterol amount (VT:0000180)	plasma total cholesterol level (CMO:0000585)	3	1	95176874	Rat
1358905	Hrtrt17	Heart rate QTL 17	5.9	0.000014	heart pumping trait (VT:2000009)	heart rate (CMO:0000002)	3	10094081	93415837	Rat
2298542	Neuinf11	Neuroinflammation QTL 11	3.9		nervous system integrity trait (VT:0010566)	spinal cord complement component 1, q subcomponent, B chain mRNA level (CMO:0002126)	3	10119318	79772001	Rat
1358885	Bp251	Blood pressure QTL 251	3.8		arterial blood pressure trait (VT:2000000)	mean arterial blood pressure (CMO:0000009)	3	10639528	127023997	Rat
1358888	Bp264	Blood pressure QTL 264	4.43		arterial blood pressure trait (VT:2000000)	mean arterial blood pressure (CMO:0000009)	3	10639528	127023997	Rat
631676	Cm8	Cardiac mass QTL 8	7.03	0.0001	aorta mass (VT:0002845)	aorta weight (CMO:0000076)	3	18023664	63023664	Rat
10450794	Scl69	Serum cholesterol level QTL 69	6.3	0.001	blood LDL cholesterol amount (VT:0000181)	blood low density lipoprotein cholesterol level (CMO:0000053)	3	21223803	66223803	Rat
10450804	Scl70	Serum cholesterol level QTL 70	4.7	0.001	blood LDL cholesterol amount (VT:0000181)	blood low density lipoprotein cholesterol level (CMO:0000053)	3	21223803	66223803	Rat
631685	Bp118	Blood pressure QTL 118	3.2		arterial blood pressure trait (VT:2000000)	systolic blood pressure (CMO:0000004)	3	24655225	69655225	Rat
2302055	Pia30	Pristane induced arthritis QTL 30	3.5	0.001	blood autoantibody amount (VT:0003725)	serum immunoglobulin M-type rheumatoid factor level relative to an arbitrary reference serum (CMO:0002111)	3	29321714	74321714	Rat
9590286	Uminl1	Urine mineral level QTL 1	3.5	0.001	urine mineral amount (VT:0015086)	urine electrolyte level (CMO:0000593)	3	29682732	74682732	Rat
9590136	Scort3	Serum corticosterone level QTL 3	23.37	0.001	blood corticosterone amount (VT:0005345)	plasma corticosterone level (CMO:0001173)	3	29682732	74682732	Rat
8552950	Pigfal12	Plasma insulin-like growth factor 1 level QTL 12	7.3		blood insulin-like growth factor amount (VT:0010479)	plasma insulin-like growth factor 1 level (CMO:0001299)	3	29682732	74682732	Rat
8694196	Abfw2	Abdominal fat weight QTL 2	16.58	0.001	visceral adipose mass (VT:0010063)	abdominal fat pad weight to body weight ratio (CMO:0000095)	3	29682732	74682732	Rat
8694386	Bw159	Body weight QTL 159	4.52	0.001	body lean mass (VT:0010483)	lean tissue morphological measurement (CMO:0002184)	3	29682732	74682732	Rat
1354590	Despr11	Despair related QTL 11		0.000031	locomotor behavior trait (VT:0001392)	amount of experiment time spent in a discrete space in an experimental apparatus (CMO:0000958)	3	29908255	74908255	Rat
2303593	Gluco46	Glucose level QTL 46	3		blood glucose amount (VT:0000188)	blood glucose level (CMO:0000046)	3	29908255	74908255	Rat
737818	Hcar12	Hepatocarcinoma resistance QTL 12	2.6		liver integrity trait (VT:0010547)	volume of individual liver tumorous lesion (CMO:0001078)	3	30114912	123700444	Rat
70216	Cm14	Cardiac mass QTL 14	2.1		heart mass (VT:0007028)	heart wet weight (CMO:0000069)	3	30846101	172879276	Rat
2301400	Cm68	Cardiac mass QTL 68		0.001	heart mass (VT:0007028)	heart wet weight to body weight ratio (CMO:0002408)	3	31103589	72989078	Rat
11565451	Bw177	Body weight QTL 177		0.002	body mass (VT:0001259)	body weight (CMO:0000012)	3	31103589	72989078	Rat
11565452	Kidm57	Kidney mass QTL 57		0.001	kidney mass (VT:0002707)	both kidneys wet weight to body weight ratio (CMO:0000340)	3	31103589	72989078	Rat
12879866	Cm94	Cardiac mass QTL 94		0.001	heart left ventricle mass (VT:0007031)	heart left ventricle weight to body weight ratio (CMO:0000530)	3	31103589	72989078	Rat
12879867	Cm95	Cardiac mass QTL 95		0.047	heart right ventricle mass (VT:0007033)	heart right ventricle weight to body weight ratio (CMO:0000914)	3	31103589	72989078	Rat
12879868	Am6	Aortic mass QTL 6		0.001	aorta mass (VT:0002845)	aorta weight to aorta length to body weight ratio (CMO:0002722)	3	31103589	72989078	Rat
61356	Bp37	Blood pressure QTL 37	3		blood pressure trait (VT:0000183)	systolic blood pressure (CMO:0000004)	3	32130997	77130997	Rat
631647	Bp122	Blood pressure QTL 122	6.2		arterial blood pressure trait (VT:2000000)	systolic blood pressure (CMO:0000004)	3	32130997	77130997	Rat
1300169	Bp177	Blood pressure QTL 177	2.96		arterial blood pressure trait (VT:2000000)	blood pressure time series experimental set point of the baroreceptor response (CMO:0002593)	3	33477354	62922975	Rat
1354589	Bw31	Body weight QTL 31	3.3		body mass (VT:0001259)	body weight (CMO:0000012)	3	33477354	81136227	Rat
1354604	Bw36	Body weight QTL 36	2.9		body mass (VT:0001259)	body weight (CMO:0000012)	3	33477354	108914061	Rat
61419	Cia11	Collagen induced arthritis QTL 11	5.6		joint integrity trait (VT:0010548)	joint inflammation composite score (CMO:0000919)	3	34394121	103141944	Rat
10450813	Scl74	Serum cholesterol level QTL 74	5.8	0.001	blood LDL cholesterol amount (VT:0000181)	blood low density lipoprotein cholesterol level (CMO:0000053)	3	39248391	52182792	Rat
10450852	Stl33	Serum triglyceride level QTL 33	3.4	0.05	blood LDL triglyceride amount (VT:0010699)	blood lipoprotein triglyceride level (CMO:0002685)	3	39248391	52182792	Rat
10450816	Scl75	Serum cholesterol level QTL 75	4.4	0.001	blood LDL cholesterol amount (VT:0000181)	blood low density lipoprotein cholesterol level (CMO:0000053)	3	39248391	52182792	Rat
1358362	Srcrt2	Stress Responsive Cort QTL 2	2.78		blood corticosterone amount (VT:0005345)	plasma corticosterone level (CMO:0001173)	3	39248391	140271184	Rat
738019	Anxrr10	Anxiety related response QTL 10	3.9		exploratory behavior trait (VT:0010471)	number of entries into a discrete space in an experimental apparatus (CMO:0000960)	3	40422921	85422921	Rat
634317	Bw117	Body weight QTL 117	3.58		abdominal fat pad mass (VT:1000711)	abdominal fat pad weight to body weight ratio (CMO:0000095)	3	40523593	54745780	Rat
2302276	Bw82	Body weight QTL 82	4.32		body mass (VT:0001259)	body weight (CMO:0000012)	3	40523593	64880586	Rat
1331777	Bw24	Body weight QTL 24	3.503		body mass (VT:0001259)	body weight (CMO:0000012)	3	40523593	92654473	Rat
1331795	Rf30	Renal function QTL 30	3.708		urine potassium amount (VT:0010539)	urine potassium level (CMO:0000128)	3	40523593	92654473	Rat
1354597	Kidm13	Kidney mass QTL 13	2.9		kidney mass (VT:0002707)	right kidney wet weight (CMO:0000082)	3	43295930	108914061	Rat
2301970	Bw81	Body weight QTL 81	5.19		body mass (VT:0001259)	body weight (CMO:0000012)	3	43295930	163640485	Rat
2301971	Cm71	Cardiac mass QTL 71	4.63		heart left ventricle mass (VT:0007031)	heart left ventricle weight (CMO:0000776)	3	43295930	163640485	Rat
1300178	Hrtrt4	Heart rate QTL 4	3.74		heart pumping trait (VT:2000009)	heart rate (CMO:0000002)	3	45406058	94467785	Rat
1581503	Cm58	Cardiac mass QTL 58	2.7	0.05	heart left ventricle mass (VT:0007031)	heart left ventricle weight to body weight ratio (CMO:0000530)	3	45406058	127023997	Rat
1559282	Emca5	Estrogen-induced mammary cancer QTL 5	3.9		mammary gland integrity trait (VT:0010552)	percentage of study population developing mammary tumors during a period of time (CMO:0000948)	3	45406058	177699992	Rat
2292591	Esta4	Estrogen-induced thymic atrophy QTL 4			thymus mass (VT:0004954)	thymus wet weight (CMO:0000855)	3	48561928	155263151	Rat
1358186	Ept2	Estrogen-induced pituitary tumorigenesis QTL 2	8.3		pituitary gland mass (VT:0010496)	pituitary gland wet weight (CMO:0000853)	3	48562146	115249962	Rat
2292613	Ept16	Estrogen-induced pituitary tumorigenesis QTL 16	8.3		pituitary gland mass (VT:0010496)	pituitary gland wet weight (CMO:0000853)	3	48562146	115249962	Rat
631665	Bw8	Body weight QTL 8	5.5		body mass (VT:0001259)	body weight (CMO:0000012)	3	51821836	124513579	Rat
724523	Tsu1	Thymus enlargement suppressive QTL 1	3.84		thymus mass (VT:0004954)	thymus weight to body weight ratio (CMO:0000612)	3	51822008	120917851	Rat

miRNA Target Status

Predicted Target Of

	Summary Value
Count of predictions:	122
Count of miRNA genes:	101
Interacting mature miRNAs:	103
Transcripts:	ENSRNOT00000007197
Prediction methods:	Microtar, 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.

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									58		2
Low	1	18	17	9	7	9	1	1	16	35	39	11	1
Below cutoff	2	18	40	32	12	32	7	9					7

View RNA-SEQ Expression Data

Sequence

Nucleotide Sequences


RefSeq Transcripts	NM_001271225	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	XM_039104837	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	XM_039104838	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	XM_039104839	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	XM_039104840	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	XM_039104841	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
GenBank Nucleotide	CH473949	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	FQ211767	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	FQ212010	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	JACYVU010000115	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles

Reference Sequences

RefSeq Acc Id:

ENSRNOT00000007197 ⟹ ENSRNOP00000007197

RefSeq Status:

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
Rnor_6.0 Ensembl	3	51,883,559 - 52,120,290 (+)	Ensembl

RefSeq Acc Id:

NM_001271225 ⟹ NP_001258154

RefSeq Status:

PROVISIONAL

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
mRatBN7.2	3	50,498,633 - 50,685,950 (+)	NCBI
Rnor_6.0	3	51,883,559 - 52,120,290 (+)	NCBI
Rnor_5.0	3	58,517,979 - 58,753,059 (+)	NCBI
Celera	3	50,091,668 - 50,271,757 (+)	NCBI

Sequence:

show sequence

ATGGATGGTCGAGGGCGGAGTGAGCTCTTCTCAGTGTGTTCTGCCGGAGCCCAAGTACAGAGAC
CATATTTACAGGTCCAAGTGACAGCTATGAGTGGAATTTTAAAGGGGAAGCTGGAAGAAGCTGA
CAGCGCCTCTCTCTGCTCTTCGGGGCAGGAATCAGATGATGACGTTTTTAGCTGTTACAGTGCT
GACAGTCTTGATAGTGTCTGTCTGTCCACAGCTGGTCATTTACCCGAAAAAATAAAAGGATATC
AGCAGCCTGAAAGGATATTCTCAGAAGCATAGACTCTTCGGAGGATACTGAACTTCATGAGATC
TCACGGTACATGTGACAGCGCCGCAGCTATGAGTGGAATTTTAAAGAGGAAGTTCGAAGATGTG
GAAGCCTCCTCGCCCTGCTCCTCTGCTCGGGAATCGGATGACGAAGTCTCCAGCAGCGAAAGTG
CTGACAGCGGGGATAGCGTCAATCCATCTACCTCCAATCACTTCACCCCTTCCTCCATCCTCAA
AAGAGAGAAACGGCTGAGGACGAAGAATGTGCACTTCAGTTGTGTCACCGTGTACTACTTCACC
AGGAGGCAGGGCTTCACCAGTGTGCCCAGCCAGGGTGGCAGCACTCTTGGGATGTCCAGCCGTC
ACAACAGCGTGCGCCAGTACACCCTGGGAGAGTTCGCAAGAGAGCAGGAGCGGCTGCACCGGGA
GATGCTGAGAGAACACCTCAGGGAGGAGAAGCTCAACTCTCTAAAACTAAAGATGACCAAGAAT
GGCACTGTAGAATCGGAGGAAGCGAGCACACTGACCGTGGATGACATTTCCGATGACGATATCG
ATTTAGACAACACGGAAGTCGACGAATACTTCTTCCTGCAACCCCTGCCCACAAAAAAACGGAG
AGCTCTGTTGCGAGCCTCTGGGGTGAAGAAGATCGACGTGGAAGAAAAACACGAGCTGCGGGCC
ATCCGCCTGTCTCGGGAGGACTGCGGCTGTGACTGCAGAGTGTTCTGTGATCCAGAAACGTGTA
CCTGCAGCCTGGCAGGCATTAAATGTCAGGTGGATCGGATGTCTTTCCCATGTGGCTGCACTAA
AGAAGGCTGTAGTAACACAGCAGGTAGAATTGAATTTAATCCTATCCGCGTGCGGACTCATTTT
TTGCACACAATAATGAAACTTGAACTGGAGAAGAACCGAGAGCAGCAAACCCCCACGCTGAACG
GCTGCCACGGGGAGATAAGCACCCACGGCCCTTCCATGGGCCCTGTCGCTCACTCCGTAGAATA
TTCCATCGCAGACAATTTCGAGATTGAAAGCGAGCCCCAGGCTGCAGTGCTGCACCTGCAGGAG
GAGCTGGATTGCCAAGGAGACGAGGAGGAGGAGGAGGAAGACGGAAGCAGTTTCTGCAGTGGAG
CCACTGACTCGAGCACCCAAAGCCTGGCCCCCAGTGAATCAGACGAGGAAGAGGAAGAGGAGGA
GGAAGAGGAGGAAGAGGAGGAGGAAGATGACGACGACGACAAGGGAGACGGCTTTGTAGAAGGG
CTTGGAGCCCATACTGAAGTCGTCCCCCTTCCTTCTGTCCTTTGTTACTCCGATGGTACTGCAG
TTCATGAAAGCCACACAAAAAATGCTTCATTTTACGCTAGCTCTTCAACTCTGTACTACCAAAT
AGACAGTCACATTCCGGGAACTCCTAGCCAGCTTTCTGACAACTATCCTGAAAGAGATACTGTC
AAAAACGGTGCCCTTTCGCTGGTGCCTTACGCCATGACCCCAGAGCGCTTTGTTGACTATGCCA
GGCAAGCAGAAGAGGCCTATGGAGCCTCTCACTACCCAGCTGCCAACCCGTCGGTCATTGTTTG
CTGCCCCACCTCTGAAAACGATAGTGGGGTGCCCTGTAACCCCTTATATCCTGAACACAGGTCC
AATCTTCCTCAAGTGGAATTTCACTCATACTTGAAAGGCCCTTCCCAGGAAGGGTTCGTCTCCA
CATTGAATGGCGACAGCCACATTTCAGAGCATCCTGCAGAAAATCCTTTGAGCCTTGCAGAAAA
GAGCAGATTGCATGAGGAGTGCATTCAATCCCCCGTGGTGGAAACAGTCCCCGTTTAGTTGCTT
AAATTATTCTATTATAGACCAAGTCTTCTATTTAAGGCACTGTATTGCCTTTGCTGGCGTTGTT
TAACCCGAAGACCAAGAATATGTGGACTGTGATTAATCTTTCAGACAGTATTTCCTTCCTTCCT
TTCTAGGTTCCCAACTGTGGCGTGGCACAAAATACAGTCGCTATGGGGATTTTAAACGATTTTG
AACTGTTTTGATAGAAAATGCTAAATTAAAAAAAAAAAGCATATCTCACAGTTGCCTACCTGTC
AAACTGTGTGAAACCTGCCAAGCTATGCAGACCATAGCTCCAAGTTTTAGATTATCGGGCCTGT
GCAAGATTGTTAACTAAGACTAGAACGCAAGCAGATTTAGAGTCCTAATTTTTCGATATATCTG
AAGATGATGGTGACTTTTTAAATGTAAAAGTAATTATTG

hide sequence

RefSeq Acc Id:

XM_039104837 ⟹ XP_038960765

RefSeq Status:

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
mRatBN7.2	3	50,533,529 - 50,695,598 (+)	NCBI

RefSeq Acc Id:

XM_039104838 ⟹ XP_038960766

RefSeq Status:

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
mRatBN7.2	3	50,498,379 - 50,695,598 (+)	NCBI

RefSeq Acc Id:

XM_039104839 ⟹ XP_038960767

RefSeq Status:

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
mRatBN7.2	3	50,508,675 - 50,695,598 (+)	NCBI

RefSeq Acc Id:

XM_039104840 ⟹ XP_038960768

RefSeq Status:

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
mRatBN7.2	3	50,588,493 - 50,695,598 (+)	NCBI

RefSeq Acc Id:

XM_039104841 ⟹ XP_038960769

RefSeq Status:

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
mRatBN7.2	3	50,590,792 - 50,695,598 (+)	NCBI

Protein Sequences


Protein RefSeqs	NP_001258154	(Get FASTA)	NCBI Sequence Viewer
	XP_038960765	(Get FASTA)	NCBI Sequence Viewer
	XP_038960766	(Get FASTA)	NCBI Sequence Viewer
	XP_038960767	(Get FASTA)	NCBI Sequence Viewer
	XP_038960768	(Get FASTA)	NCBI Sequence Viewer
	XP_038960769	(Get FASTA)	NCBI Sequence Viewer
GenBank Protein	EDL79028	(Get FASTA)	NCBI Sequence Viewer

Reference Sequences

RefSeq Acc Id:

NP_001258154 ⟸ NM_001271225

- Sequence:

show sequence

MRSHGTCDSAAAMSGILKRKFEDVEASSPCSSARESDDEVSSSESADSGDSVNPSTSNHFTPSS
ILKREKRLRTKNVHFSCVTVYYFTRRQGFTSVPSQGGSTLGMSSRHNSVRQYTLGEFAREQERL
HREMLREHLREEKLNSLKLKMTKNGTVESEEASTLTVDDISDDDIDLDNTEVDEYFFLQPLPTK
KRRALLRASGVKKIDVEEKHELRAIRLSREDCGCDCRVFCDPETCTCSLAGIKCQVDRMSFPCG
CTKEGCSNTAGRIEFNPIRVRTHFLHTIMKLELEKNREQQTPTLNGCHGEISTHGPSMGPVAHS
VEYSIADNFEIESEPQAAVLHLQEELDCQGDEEEEEEDGSSFCSGATDSSTQSLAPSESDEEEE
EEEEEEEEEEEDDDDDKGDGFVEGLGAHTEVVPLPSVLCYSDGTAVHESHTKNASFYASSSTLY
YQIDSHIPGTPSQLSDNYPERDTVKNGALSLVPYAMTPERFVDYARQAEEAYGASHYPAANPSV
IVCCPTSENDSGVPCNPLYPEHRSNLPQVEFHSYLKGPSQEGFVSTLNGDSHISEHPAENPLSL
AEKSRLHEECIQSPVVETVPV

hide sequence

RefSeq Acc Id:

ENSRNOP00000007197 ⟸ ENSRNOT00000007197

RefSeq Acc Id:	XP_038960766 ⟸ XM_039104838
- Peptide Label:	isoform X2

RefSeq Acc Id:	XP_038960767 ⟸ XM_039104839
- Peptide Label:	isoform X2

RefSeq Acc Id:	XP_038960765 ⟸ XM_039104837
- Peptide Label:	isoform X1

RefSeq Acc Id:	XP_038960768 ⟸ XM_039104840
- Peptide Label:	isoform X3

RefSeq Acc Id:	XP_038960769 ⟸ XM_039104841
- Peptide Label:	isoform X3

Protein Domains

CSRNP_N

Transcriptome

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

Strain Variation

Strain Sequence Variants (Rnor 6.0)

ACI/EurMcwi (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)

ACI/EurMcwi (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

ACI/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

BBDP/Wor (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

BN/SsN (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

Buf/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

COP/CrCrl (MCW & UW)

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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)

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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

F344/NRrrc (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

FHH/EurMcwi (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)

FHH/EurMcwi (RGD)

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CSV

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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

FHL/EurMcwi (MCW)

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CSV

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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)

FHL/EurMcwi (RGD)

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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

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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CSV

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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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CSV

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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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CSV

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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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CSV

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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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CSV

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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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CSV

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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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CSV

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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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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

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:1306214	AgrOrtholog
Ensembl Genes	ENSRNOG00000005359	Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Protein	ENSRNOP00000007197	ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript	ENSRNOT00000007197	ENTREZGENE, UniProtKB/TrEMBL
InterPro	CSRNP_N	UniProtKB/TrEMBL
	Cys/Ser-rich_nuc_prot	UniProtKB/TrEMBL
NCBI Gene	311093	ENTREZGENE
PANTHER	Cys/Ser-rich_nuc_prot	UniProtKB/TrEMBL
Pfam	CSRNP_N	UniProtKB/TrEMBL
PhenoGen	Csrnp3	PhenoGen
PRINTS	CYSSERRICHNP	UniProtKB/TrEMBL
UniProt	D4AE74_RAT	UniProtKB/TrEMBL

Nomenclature History

Date	Current Symbol	Current Name	Previous Symbol	Previous Name	Description	Reference	Status
2016-03-15	Csrnp3	cysteine and serine rich nuclear protein 3	Csrnp3	cysteine-serine-rich nuclear protein 3	Nomenclature updated to reflect human and mouse nomenclature	1299863	APPROVED
2008-05-27	Csrnp3	cysteine-serine-rich nuclear protein 3	Csnrp3	cysteine-serine-rich nuclear protein 3	Nomenclature updated to reflect human and mouse nomenclature	1299863	APPROVED
2008-03-07	Csnrp3	cysteine-serine-rich nuclear protein 3	RGD1306214_predicted	similar to TGF-beta induced apotosis protein 2 (predicted)	Nomenclature updated to reflect human and mouse nomenclature	1299863	APPROVED
2005-01-20	RGD1306214_predicted	similar to TGF-beta induced apotosis protein 2 (predicted)	LOC311093_predicted		Symbol and Name status set to approved	1331353	APPROVED
2005-01-12	LOC311093_predicted	similar to TGF-beta induced apotosis protein 2 (predicted)			Symbol and Name status set to provisional	70820	PROVISIONAL

Gene Annotator (Functional Annotation) unavailable	Gene Annotator (Annotation Distribution) unavailable	Variant Visualizer (Genomic Variants) unavailble Variant Visualizer (Genomic Variants) unavailable
Gene Annotator (Functional Annotation)	Gene Annotator (Annotation Distribution)	Variant Visualizer (Genomic Variants)

InterViewer (Protein-Protein Interactions) unavailable	Gviewer (Genome Viewer) unavailable	Variant Visualizer (Damaging Variants) unavailble Variant Visualizer (Damaging Variants) unavailable
InterViewer (Protein-Protein Interactions)	GViewer (Genome Viewer)	Variant Visualizer (Damaging Variants)

Gene Annotator (Annotation Comparison) unavailable	OLGA (Gene List Generator) unavailable
Gene Annotator (Annotation Comparison)	OLGA (Gene List Generator)	Excel (Download)

MOET (Multi-Ontology Enrichement) unavailable	GOLF (Gene-Ortholog Location Finder) unavailable
MOET (Multi-Ontology Enrichement)	GOLF (Gene-Ortholog Location Finder)

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Imported Disease Annotations - ClinVar

Imported Disease Annotations - CTD