Ptma (prothymosin alpha) - Rat Genome Database

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

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Gene: Ptma (prothymosin alpha) Rattus norvegicus

Analyze

Symbol:

Ptma

Name:

prothymosin alpha

RGD ID:

61829

Description:

Predicted to have activating transcription factor binding activity and histone binding activity. Involved in negative regulation of cysteine-type endopeptidase activity involved in apoptotic process; positive regulation of NF-kappaB transcription factor activity; and positive regulation of transcription by RNA polymerase II. Predicted to localize to cytosol and nucleoplasm. Orthologous to human PTMA (prothymosin alpha); INTERACTS WITH 1-naphthyl isothiocyanate; 17beta-estradiol; 2,3,7,8-tetrachlorodibenzodioxine.

Type:

protein-coding

RefSeq Status:

VALIDATED

Also known as:

alpha-prothymosin; prothymosin-alpha

RGD Orthologs

Human

Mouse

Chinchilla

Bonobo

Dog

Squirrel

Pig

Green Monkey

Naked Mole-Rat

Alliance Genes

More Info

more info ...

More Info

Species	Gene symbol and name	Data Source	Assertion derived from	less info ...
Orthologs ¹				less info ...
Homo sapiens (human):	PTMA (prothymosin alpha)	HGNC	Ensembl, Inparanoid, NCBI, OMA, Panther, Treefam
Mus musculus (house mouse):	Ptma (prothymosin alpha)	HGNC	Treefam, NCBI, OMA, Inparanoid, Panther, Ensembl
Chinchilla lanigera (long-tailed chinchilla):	Ptma (prothymosin alpha)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Pan paniscus (bonobo/pygmy chimpanzee):	PTMA (prothymosin alpha)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Canis lupus familiaris (dog):	PTMA (prothymosin alpha)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Ictidomys tridecemlineatus (thirteen-lined ground squirrel):	Ptma (prothymosin alpha)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Sus scrofa (pig):	PTMA (prothymosin alpha)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Chlorocebus sabaeus (African green monkey):	PTMA (prothymosin alpha)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Heterocephalus glaber (naked mole-rat):	Ptma (prothymosin alpha)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Alliance orthologs ³
Homo sapiens (human):	PTMA (prothymosin alpha)	Alliance	DIOPT (Ensembl Compara\|HGNC\|OMA\|TreeFam)

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	9	87,176,251 - 87,180,333 (+)	NCBI
Rnor_6.0 Ensembl	9	93,545,396 - 93,549,436 (+)	Ensembl	Rnor6.0		rn6	Rnor6.0
Rnor_6.0	9	93,545,396 - 93,549,436 (+)	NCBI	Rnor6.0	Rnor_6.0	rn6	Rnor6.0
Rnor_5.0	9	93,273,333 - 93,277,373 (+)	NCBI	Rnor5.0	Rnor_5.0	rn5	Rnor5.0
RGSC_v3.4	9	85,291,203 - 85,295,242 (+)	NCBI	RGSC3.4		rn4	RGSC3.4
RGSC_v3.1	9	85,474,621 - 85,478,661 (+)	NCBI
Celera	9	84,591,345 - 84,595,385 (+)	NCBI		Celera
Cytogenetic Map	9	q35	NCBI

JBrowse:

View Region in Genome Browser (JBrowse)

Model

Annotation Click to see Annotation Detail View

Disease Annotations Click to see Annotation Detail View

adenoma (ISO)

fatty liver disease (ISO)

Lung Neoplasms (ISO)

polycystic kidney disease (ISS)

pulmonary emphysema (ISS)

rhabdomyosarcoma (ISO)

Gene-Chemical Interaction Annotations Click to see Annotation Detail View

1,2-dimethylhydrazine (ISO)

1-naphthyl isothiocyanate (EXP)

17beta-estradiol (EXP,ISO)

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

2,4-dinitrotoluene (EXP)

2-hydroxypropanoic acid (ISO)

3',5'-cyclic AMP (ISO)

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

4,4'-diaminodiphenylmethane (ISO)

4,4'-sulfonyldiphenol (ISO)

4-hydroxyphenyl retinamide (ISO)

6-propyl-2-thiouracil (EXP)

all-trans-retinoic acid (ISO)

alpha-Zearalanol (EXP)

ammonium chloride (EXP)

arsenous acid (ISO)

benzo[a]pyrene (ISO)

benzo[b]fluoranthene (ISO)

bisphenol A (EXP,ISO)

bisphenol F (ISO)

bromobenzene (EXP)

buspirone (EXP)

cadmium dichloride (EXP)

carbon nanotube (ISO)

chloroform (EXP)

chloropicrin (ISO)

choline (ISO)

chromium(6+) (ISO)

chrysene (ISO)

cisplatin (ISO)

clofibric acid (EXP)

cobalt dichloride (ISO)

copper atom (ISO)

copper(0) (ISO)

copper(II) sulfate (ISO)

coumestrol (EXP)

dexamethasone (ISO)

diarsenic trioxide (ISO)

diazinon (ISO)

diethylstilbestrol (ISO)

dioxygen (ISO)

disulfiram (ISO)

doxorubicin (ISO)

ethanol (EXP,ISO)

fipronil (EXP)

folic acid (ISO)

fructose (EXP)

genistein (EXP)

gentamycin (EXP)

glafenine (EXP)

glutathione (ISO)

hydralazine (ISO)

hydrogen peroxide (ISO)

indometacin (ISO)

L-methionine (ISO)

leflunomide (EXP)

methotrexate (ISO)

N-nitrosodiethylamine (EXP)

naloxone (EXP)

nickel sulfate (ISO)

O-acetyl-L-carnitine (EXP)

ochratoxin A (EXP)

paracetamol (ISO)

paraquat (EXP)

pirinixic acid (EXP)

quinidine (EXP)

rac-lactic acid (ISO)

reactive oxygen species (ISO)

resveratrol (ISO)

sodium arsenite (EXP,ISO)

sodium dichromate (EXP)

tert-butyl hydroperoxide (ISO)

testosterone enanthate (ISO)

tetrachloromethane (EXP)

tetracycline (EXP)

tetraphene (ISO)

theophylline (EXP)

Tributyltin oxide (ISO)

trovafloxacin (EXP)

tubocurarine (ISO)

uranium atom (ISO)

ursodeoxycholic acid (EXP)

valproic acid (ISO)

vandetanib (ISO)

zinc atom (EXP)

zinc(0) (EXP)

Gene Ontology Annotations Click to see Annotation Detail View

Biological Process

cell differentiation (TAS)

cell population proliferation (TAS)

histone exchange (ISO)

negative regulation of apoptotic process (IDA,ISO)

negative regulation of cysteine-type endopeptidase activity involved in apoptotic process (IDA)

positive regulation of NF-kappaB transcription factor activity (IGI)

positive regulation of transcription by RNA polymerase II (IDA)

Cellular Component

cytosol (ISO)

nucleoplasm (ISO)

nucleus (ISO)

Molecular Function

activating transcription factor binding (ISO)

histone binding (ISO)

protein binding (ISO)

References

References - curated


1.	Dosil M, etal., FEBS Lett 1990 Sep 3;269(2):373-6.
2.	Frangou-Lazaridis M, etal., Arch Biochem Biophys 1988 Jun;263(2):305-10.
3.	Gaubatz S, etal., Mol Cell Biol 1994 Jun;14(6):3853-62.
4.	GOA data from the GO Consortium
5.	Jiang X, etal., Science 2003 Jan 10;299(5604):223-6.
6.	Karetsou Z, etal., EMBO Rep. 2002 Apr;3(4):361-6. Epub 2002 Mar 15.
7.	NCBI rat LocusLink and RefSeq merged data July 26, 2002
8.	RGD automated data pipeline
9.	RGD automated import pipeline for gene-chemical interactions
10.	Strausberg RL, etal., Proc Natl Acad Sci U S A. 2002 Dec 24;99(26):16899-903. Epub 2002 Dec 11.
11.	Tentative Sequence Data IDs. TIGR Gene Index, Rat Data

Additional References at PubMed

PMID:1989881	PMID:2226321	PMID:2269362	PMID:3855555	PMID:8485135	PMID:15489334	PMID:16478804	PMID:16845491	PMID:20432433	PMID:20434447	PMID:20467443	PMID:23278181
PMID:23359453	PMID:23376485	PMID:25002582

Genomics

Comparative Map Data

Ptma
(Rattus norvegicus - Norway rat)

Rat Assembly	Chr	Position (strand)	Source	Genome Browsers
Rat Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
mRatBN7.2	9	87,176,251 - 87,180,333 (+)	NCBI
Rnor_6.0 Ensembl	9	93,545,396 - 93,549,436 (+)	Ensembl	Rnor6.0		rn6	Rnor6.0
Rnor_6.0	9	93,545,396 - 93,549,436 (+)	NCBI	Rnor6.0	Rnor_6.0	rn6	Rnor6.0
Rnor_5.0	9	93,273,333 - 93,277,373 (+)	NCBI	Rnor5.0	Rnor_5.0	rn5	Rnor5.0
RGSC_v3.4	9	85,291,203 - 85,295,242 (+)	NCBI	RGSC3.4		rn4	RGSC3.4
RGSC_v3.1	9	85,474,621 - 85,478,661 (+)	NCBI
Celera	9	84,591,345 - 84,595,385 (+)	NCBI		Celera
Cytogenetic Map	9	q35	NCBI

PTMA
(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	231,706,895 - 231,713,551 (+)	Ensembl	GRCh38		hg38	GRCh38
GRCh38.p13 Ensembl	2	231,706,895 - 231,713,541 (+)	Ensembl	GRCh38		hg38	GRCh38
GRCh38	2	231,708,525 - 231,713,551 (+)	NCBI	GRCh38	GRCh38	hg38	GRCh38
GRCh37	2	232,573,235 - 232,578,251 (+)	NCBI	GRCh37	GRCh37	hg19	GRCh37
GRCh37	2	232,573,235 - 232,578,261 (+)	NCBI	GRCh37	GRCh37	hg19	GRCh37
Build 36	2	232,281,479 - 232,286,495 (+)	NCBI	NCBI36		hg18	NCBI36
Build 34	2	232,398,740 - 232,403,754	NCBI
Celera	2	226,349,751 - 226,354,767 (+)	NCBI
Cytogenetic Map	2	q37.1	NCBI
HuRef	2	224,415,419 - 224,421,126 (+)	NCBI		HuRef
CHM1_1	2	232,579,058 - 232,584,074 (+)	NCBI		CHM1_1

Ptma
(Mus musculus - house mouse)

Mouse Assembly	Chr	Position (strand)	Source	Genome Browsers
Mouse Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCm39	1	86,454,279 - 86,458,434 (+)	NCBI	GRCm39		mm39
GRCm38	1	86,526,557 - 86,530,712 (+)	NCBI	GRCm38	GRCm38	mm10	GRCm38
GRCm38.p6 Ensembl	1	86,526,726 - 86,530,712 (+)	Ensembl	GRCm38		mm10	GRCm38
MGSCv37	1	88,423,311 - 88,427,273 (+)	NCBI	GRCm37		mm9	NCBIm37
MGSCv36	1	88,357,907 - 88,361,869 (+)	NCBI			mm8
Celera	1	89,496,434 - 89,500,314 (+)	NCBI		Celera
Cytogenetic Map	1	C5	NCBI

Ptma
(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	NW_004955453	4,036,503 - 4,037,788 (-)	NCBI	ChiLan1.0	ChiLan1.0

PTMA
(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	237,746,118 - 237,750,806 (+)	NCBI	panpan1.1	PanPan1.1	panPan2
Mhudiblu_PPA_v0	2B	118,959,382 - 118,964,364 (+)	NCBI	Mhudiblu_PPA_v0		panPan3

PTMA
(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	25	43,562,395 - 43,675,699 (+)	Ensembl	CanFam3.1		canFam3	CanFam3.1
CanFam3.1	25	43,563,145 - 43,567,987 (+)	NCBI	CanFam3.1	CanFam3.1	canFam3	CanFam3.1

Ptma
(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_004936525	5,253,723 - 5,258,300 (-)	NCBI	SpeTri2.0	SpeTri2.0		SpeTri2.0

PTMA
(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	132,355,655 - 132,361,435 (+)	Ensembl	Sscrofa11.1		susScr11	Sscrofa11.1
Sscrofa11.1	15	132,353,763 - 132,361,442 (+)	NCBI	Sscrofa11.1	Sscrofa11.1	susScr11	Sscrofa11.1

PTMA
(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	117,721,097 - 117,722,065 (+)	NCBI

Ptma
(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_004624843	4,728,963 - 4,732,659 (+)	NCBI

Position Markers

BE099527

Rat Assembly	Chr	Position (strand)	Source	JBrowse
Rnor_6.0	9	93,546,378 - 93,546,540	NCBI	Rnor6.0
Rnor_5.0	9	93,274,315 - 93,274,477	UniSTS	Rnor5.0
RGSC_v3.4	9	85,292,185 - 85,292,347	UniSTS	RGSC3.4
Celera	9	84,592,327 - 84,592,489	UniSTS
Cytogenetic Map	9	q35	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
724544	Uae9	Urinary albumin excretion QTL 9	4.5		urine albumin amount (VT:0002871)	urine albumin level (CMO:0000130)	9	29075079	122095297	Rat
731164	Uae25	Urinary albumin excretion QTL 25	3.5	0.0001	urine albumin amount (VT:0002871)	urine albumin excretion rate (CMO:0000757)	9	29466970	107878528	Rat
8662828	Vetf6	Vascular elastic tissue fragility QTL 6	3.9		artery integrity trait (VT:0010639)	patent ductus arteriosus score (CMO:0002566)	9	41261034	98606834	Rat
2290450	Scl57	Serum cholesterol level QTL 57	4.15		blood cholesterol amount (VT:0000180)	plasma total cholesterol level (CMO:0000585)	9	41261034	102531865	Rat
10058949	Gmadr5	Adrenal mass QTL 5	2	0.014	adrenal gland mass (VT:0010420)	both adrenal glands wet weight to body weight ratio (CMO:0002411)	9	47248965	94124663	Rat
631656	Bp108	Blood pressure QTL 108	5.97	0.0001	arterial blood pressure trait (VT:2000000)	systolic blood pressure (CMO:0000004)	9	54177542	99177542	Rat
1578760	Cm53	Cardiac mass QTL 53	3.3	0.0001	heart mass (VT:0007028)	heart wet weight (CMO:0000069)	9	61186278	106186278	Rat
724515	Uae16	Urinary albumin excretion QTL 16	8		urine albumin amount (VT:0002871)	urine albumin excretion rate (CMO:0000757)	9	63270073	107878387	Rat
1300134	Bp185	Blood pressure QTL 185	3.73		arterial blood pressure trait (VT:2000000)	mean arterial blood pressure (CMO:0000009)	9	66757444	112943287	Rat
1581580	Uae34	Urinary albumin excretion QTL 34			urine albumin amount (VT:0002871)	urine albumin excretion rate (CMO:0000757)	9	67451664	99920892	Rat
1578757	Pur6	Proteinuria QTL 6	3.3	0.005	total urine protein amount (VT:0000032)	urine total protein excretion rate (CMO:0000756)	9	67451664	99920892	Rat
61385	Edpm9	Estrogen-dependent pituitary mass QTL 9	3.43	0.05	pituitary gland mass (VT:0010496)	pituitary gland wet weight (CMO:0000853)	9	70241351	115241351	Rat
731171	Glom6	Glomerulus QTL 6	2.8	0.0003	kidney glomerulus morphology trait (VT:0005325)	count of superficial glomeruli not directly contacting the kidney surface (CMO:0001002)	9	70942881	115942881	Rat
1354626	Bvd1	Brain ventricular dilatation QTL 1	3.73	0.001	brain ventricle morphology trait (VT:0000822)	hydrocephalus severity score (CMO:0001881)	9	81411073	119983851	Rat
2303178	Bp334	Blood pressure QTL 334	3.7	0.01	arterial blood pressure trait (VT:2000000)	systolic blood pressure (CMO:0000004)	9	83686153	98164303	Rat
2303178	Bp334	Blood pressure QTL 334	3.7	0.01	arterial blood pressure trait (VT:2000000)	diastolic blood pressure (CMO:0000005)	9	83686153	98164303	Rat
2303178	Bp334	Blood pressure QTL 334	3.7	0.01	arterial blood pressure trait (VT:2000000)	mean arterial blood pressure (CMO:0000009)	9	83686153	98164303	Rat
724547	Cm21	Cardiac mass QTL 21	2.7		heart mass (VT:0007028)	calculated heart weight (CMO:0000073)	9	83686153	111609081	Rat
4889852	Pur26	Proteinuria QTL 26	15	0.001	total urine protein amount (VT:0000032)	urine total protein excretion rate (CMO:0000756)	9	90024661	107199079	Rat
7794784	Mcs31	Mammary carcinoma susceptibility QTL 31	2.98		mammary gland integrity trait (VT:0010552)	mammary tumor incidence/prevalence measurement (CMO:0000946)	9	90024661	119983851	Rat
4889943	Bss90	Bone structure and strength QTL 90	4.1		tibia area (VT:1000281)	tibia-fibula cortical bone endosteal cross-sectional area (CMO:0001722)	9	92741297	98606834	Rat

miRNA Target Status

Predicted Target Of

	Summary Value
Count of predictions:	156
Count of miRNA genes:	114
Interacting mature miRNAs:	119
Transcripts:	ENSRNOT00000025093, ENSRNOT00000051368
Prediction methods:	Microtar, Miranda, Rnahybrid
Result types:	miRGate_prediction

The detailed report is available here: Full Report CSV TAB Printer

miRNA Target Status data imported from miRGate (http://mirgate.bioinfo.cnio.es/).
For more information about miRGate, see PMID:25858286 or access the full paper here.

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	2	4	19	14	6	14			45	20	26	2
Medium	1	39	38	27	13	27	8	11	29	15	15	9	8
Low
Below cutoff

View RNA-SEQ Expression Data

Sequence

Nucleotide Sequences


RefSeq Transcripts	NM_021740	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
GenBank Nucleotide	AC112440	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	BC061972	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	BC092569	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	CH474004	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	FQ210626	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	FQ212611	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	FQ214221	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	FQ215633	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	FQ219686	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	FQ220677	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	FQ220954	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	FQ221801	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	FQ225103	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	FQ225924	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	FQ226916	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	FQ226946	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	FQ227002	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	FQ227835	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	FQ228001	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	FQ229930	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	FQ231540	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	FQ231794	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	FQ232039	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	FQ233285	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	JACYVU010000215	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	M20035	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	M33024	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	M60665	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	M86564	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles

Reference Sequences

RefSeq Acc Id:

NM_021740 ⟹ NP_068508

RefSeq Status:

VALIDATED

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
mRatBN7.2	9	87,176,251 - 87,180,333 (+)	NCBI
Rnor_6.0	9	93,545,396 - 93,549,436 (+)	NCBI
Rnor_5.0	9	93,273,333 - 93,277,373 (+)	NCBI
RGSC_v3.4	9	85,291,203 - 85,295,242 (+)	RGD
Celera	9	84,591,345 - 84,595,385 (+)	NCBI

Sequence:

show sequence

GTTCCCGGGTCGTGCTCCGCGCTCACTGCAGCCACCTTCGCCGCCCACCGTCTCCTCCAACGCG
GACTCCGGCAGCTTTCTCGCCAGAGTCCTCGAAACTCGACTAATTCCTTACGCGTACGACCAGA
CCACCGGCGTGCCCCACCATGTCAGACGCGGCAGTGGACACCAGCTCCGAGATCACCACCAAGG
ACTTGAAGGAGAAGAAGGAAGTTGTGGAGGAGGCAGAGAATGGAAGAGACGCACCTGCCAATGG
GAACGCTCAAAATGAGGAAAATGGGGAGCAGGAGGCTGACAATGAGGTAGATGAAGAAGAGGAA
GAAGGTGGGGAGGAAGAGGAGGAGGAGGAAGAAGGTGATGGTGAGGAAGAAGATGGAGATGAAG
ATGAGGAAGCTGAGGCTCCTACGGGCAAGCGGGTAGCTGAGGATGATGAGGATGATGATGTTGA
GACCAAGAAGCAGAAGAAGACTGATGAGGATGACTAGACAGCAAAAGGAAAAGCTAACCTTACG
CACCGTGACCTATTCACCCTCCACTTCCCGTCTCAGAATTTAAACGTGGTCACCTTCGAGTAGA
GAAGCAGGCCCCCGCCCGCCCACTGCGCGAGTGCCACCCACCAATGACATGCGCTCTTCACCAC
CCCACCAAAACCACAACATGAATTGGCAACATGGGAGGAGAAAAGAACCAGAACTTCCCAGGCC
CTGCTTTTTTTCTTAAAAATACTTTAAAAGGAAAATTTGTTTGTATTTTTTATTTACATTTTAT
ATTTTTGTACATATTGTTAGGGGTCAGCCATTTTTAATGATAACGGGTGACCAAACCAGCCTTC
AGAGCGTTTTCTGTCCTACTTCAGACTTTACTTGTGGTGTGACCATGTTCATTATACTCTCAAA
GGAGAAAAAAAACCTTGTAAAAAAAACAAAAACAACAACAAAAAAACAATCTTATTCTGAGCAT
TCCAGTAACTTTTTTTGTGTATGTACCTAGCTGTACTATAAGTAGTTGGTTTGTATGAGATGGT
TAAAAAGGCCAAAGATAAAAAGATTTTTTTTCCTTTTTTTTTGTCTATGAAGTTGCTGTTTATT
TTTTTGGCCTGTTTGATGTATGTGTGAAACAATGTCCAACAATAAACCGGAATTTTATTTTGCT
GAGTTGTTCCAAAAAAAAAAAAAGGAATCC

hide sequence

Protein Sequences


Protein RefSeqs	NP_068508	(Get FASTA)	NCBI Sequence Viewer
GenBank Protein	AAA40758	(Get FASTA)	NCBI Sequence Viewer
	AAA41931	(Get FASTA)	NCBI Sequence Viewer
	AAA41942	(Get FASTA)	NCBI Sequence Viewer
	AAA42241	(Get FASTA)	NCBI Sequence Viewer
	AAH61972	(Get FASTA)	NCBI Sequence Viewer
	AAH92569	(Get FASTA)	NCBI Sequence Viewer
	EDL75594	(Get FASTA)	NCBI Sequence Viewer
	P06302	(Get FASTA)	NCBI Sequence Viewer

Reference Sequences

RefSeq Acc Id:	NP_068508 ⟸ NM_021740
- UniProtKB:	P06302 (UniProtKB/Swiss-Prot)
- Sequence:	show sequence MSDAAVDTSSEITTKDLKEKKEVVEEAENGRDAPANGNAQNEENGEQEADNEVDEEEEEGGEEE EEEEEGDGEEEDGDEDEEAEAPTGKRVAEDDEDDDVETKKQKKTDEDD hide sequence

Transcriptome

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

Promoters

RGD ID:

13696824

Promoter ID:

EPDNEW_R7349

Type:

multiple initiation site

Name:

LOC100359583_1

Description:

hypothetical protein LOC100359583

SO ACC ID:

SO:0000170

Source:

EPDNEW (Eukaryotic Promoter Database, http://epd.vital-it.ch/)

Experiment Methods:

Single-end sequencing.

Position:

Rat Assembly	Chr	Position (strand)	Source
Rnor_6.0	9	93,545,365 - 93,545,425	EPDNEW

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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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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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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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:61829	AgrOrtholog
Ensembl Genes	ENSRNOG00000018584	Ensembl, ENTREZGENE, UniProtKB/Swiss-Prot
	ENSRNOG00000025731	UniProtKB/Swiss-Prot
Ensembl Protein	ENSRNOP00000025093	ENTREZGENE, UniProtKB/Swiss-Prot
	ENSRNOP00000059708	UniProtKB/Swiss-Prot
Ensembl Transcript	ENSRNOT00000025093	ENTREZGENE, UniProtKB/Swiss-Prot
	ENSRNOT00000051368	UniProtKB/Swiss-Prot
IMAGE_CLONE	IMAGE:5623463	IMAGE-MGC_LOAD
	IMAGE:7307282	IMAGE-MGC_LOAD
InterPro	Pro/parathymosin	UniProtKB/Swiss-Prot
KEGG Report	rno:100359583	UniProtKB/Swiss-Prot
	rno:29222	UniProtKB/Swiss-Prot
MGC_CLONE	MGC:108698	IMAGE-MGC_LOAD
	MGC:72468	IMAGE-MGC_LOAD
NCBI Gene	29222	ENTREZGENE
PANTHER	PTHR22745	UniProtKB/Swiss-Prot
Pfam	Prothymosin	UniProtKB/Swiss-Prot
PhenoGen	Ptma	PhenoGen
TIGR	TC203976
UniProt	P06302	ENTREZGENE, UniProtKB/Swiss-Prot
UniProt Secondary	Q569C8	UniProtKB/Swiss-Prot

Nomenclature History

Date	Current Symbol	Current Name	Previous Symbol	Previous Name	Description	Reference	Status
2002-06-10	Ptma	prothymosin alpha			Name updated	70584	APPROVED

RGD Curation Notes

Note Type	Note	Reference
gene_homology	has a region with similarity to a 12 amino acid segment of the HTLV-IIIB p17 protein	61720

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 - MGI