Aptx (aprataxin) - Rat Genome Database

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

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Gene: Aptx (aprataxin) Rattus norvegicus

Analyze

Symbol:

Aptx

Name:

aprataxin

RGD ID:

628740

Description:

Predicted to enable several functions, including hydrolase activity, acting on ester bonds; nucleic acid binding activity; and phosphoprotein binding activity. Predicted to be involved in regulation of protein stability and single strand break repair. Predicted to act upstream of or within DNA ligation. Predicted to be located in nucleolus and nucleoplasm. Predicted to be part of chromatin. Predicted to be active in nucleus. Human ortholog(s) of this gene implicated in ataxia with oculomotor apraxia type 1 and olivopontocerebellar atrophy. Orthologous to human APTX (aprataxin); PARTICIPATES IN non-homologous end joining pathway of double-strand break repair; INTERACTS WITH 2,3,7,8-tetrachlorodibenzodioxine; ammonium chloride; bisphenol A.

Type:

protein-coding

RefSeq Status:

PROVISIONAL

Previously known as:

FHA-HIT; forkhead-associated domain histidine triad-like protein

RGD Orthologs

Alliance Genes

More Info

more info ...

More Info

Species	Gene symbol and name	Data Source	Assertion derived from	less info ...
Orthologs ¹				less info ...
Homo sapiens (human):	APTX (aprataxin)	HGNC	EggNOG, Ensembl, HomoloGene, Inparanoid, NCBI, OMA, OrthoDB, OrthoMCL, Panther, PhylomeDB
Mus musculus (house mouse):	Aptx (aprataxin)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Chinchilla lanigera (long-tailed chinchilla):	Aptx (aprataxin)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Pan paniscus (bonobo/pygmy chimpanzee):	APTX (aprataxin)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Canis lupus familiaris (dog):	APTX (aprataxin)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Ictidomys tridecemlineatus (thirteen-lined ground squirrel):	Aptx (aprataxin)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Sus scrofa (pig):	APTX (aprataxin)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Chlorocebus sabaeus (green monkey):	APTX (aprataxin)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Heterocephalus glaber (naked mole-rat):	Aptx (aprataxin)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Alliance orthologs ³
Mus musculus (house mouse):	Aptx (aprataxin)	Alliance	DIOPT (Ensembl Compara\|Hieranoid\|InParanoid\|OMA\|OrthoFinder\|OrthoInspector\|PANTHER\|PhylomeDB\|SonicParanoid)
Homo sapiens (human):	APTX (aprataxin)	Alliance	DIOPT (Ensembl Compara\|HGNC\|Hieranoid\|InParanoid\|OMA\|OrthoFinder\|OrthoInspector\|PANTHER\|PhylomeDB\|SonicParanoid)
Danio rerio (zebrafish):	aptx (aprataxin)	Alliance	DIOPT (Ensembl Compara\|Hieranoid\|InParanoid\|OMA\|OrthoFinder\|OrthoInspector\|PANTHER\|PhylomeDB\|SonicParanoid)
Drosophila melanogaster (fruit fly):	CG5316	Alliance	DIOPT (Ensembl Compara\|OrthoFinder\|OrthoInspector\|PANTHER\|SonicParanoid)
Saccharomyces cerevisiae (baker's yeast):	HNT3	Alliance	DIOPT (Ensembl Compara\|Hieranoid\|OrthoFinder\|OrthoInspector\|PANTHER\|SonicParanoid)
Xenopus tropicalis (tropical clawed frog):	aptx	Alliance	DIOPT (Ensembl Compara\|Hieranoid\|InParanoid\|OMA\|OrthoFinder\|OrthoInspector\|PANTHER\|SonicParanoid)

Latest Assembly:

mRatBN7.2 - mRatBN7.2 Assembly

Position:

Rat Assembly	Chr	Position (strand)	Source	Genome Browsers
Rat Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
mRatBN7.2	5	55,798,896 - 55,822,963 (-)	NCBI	mRatBN7.2	mRatBN7.2
mRatBN7.2 Ensembl	5	55,800,248 - 55,822,855 (-)	Ensembl		mRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx	5	57,767,534 - 57,788,467 (-)	NCBI	Rnor_SHR	UTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0	5	59,586,691 - 59,607,626 (-)	NCBI	Rnor_SHRSP	UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0	5	59,580,671 - 59,601,669 (-)	NCBI	Rnor_WKY	UTH_Rnor_WKY_Bbb_1.0
Rnor_6.0	5	56,987,714 - 57,009,481 (-)	NCBI	Rnor6.0	Rnor_6.0	rn6	Rnor6.0
Rnor_6.0 Ensembl	5	56,987,909 - 57,008,859 (-)	Ensembl	Rnor6.0		rn6	Rnor6.0
Rnor_5.0	5	61,521,843 - 61,543,083 (-)	NCBI	Rnor5.0	Rnor_5.0	rn5	Rnor5.0
RGSC_v3.4	5	58,060,210 - 58,081,165 (-)	NCBI	RGSC3.4	RGSC_v3.4	rn4	RGSC3.4
RGSC_v3.1	5	58,060,392 - 58,081,344 (-)	NCBI
Celera	5	54,414,271 - 54,435,214 (-)	NCBI		Celera
Cytogenetic Map	5	q22	NCBI

JBrowse:

View Region in Genome Browser (JBrowse)

Model

Annotation Click to see Annotation Detail View

Disease Annotations Click to see Annotation Detail View

acromesomelic dysplasia, Maroteaux type (ISO)

ataxia with oculomotor apraxia type 1 (ISO)

ataxia with oculomotor apraxia type 2 (ISO)

coenzyme Q10 deficiency disease (ISO)

distal arthrogryposis type 1A (ISO)

frontotemporal dementia and/or amyotrophic lateral sclerosis-6 (ISO)

galactosemia (ISO)

genetic disease (ISO)

olivopontocerebellar atrophy (ISO)

primary ciliary dyskinesia (ISO)

primary coenzyme Q10 deficiency 1 (ISO)

Gene-Chemical Interaction Annotations Click to see Annotation Detail View

(1->4)-beta-D-glucan (ISO)

2,3',4,4',5-Pentachlorobiphenyl (ISO)

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

2-methylcholine (ISO)

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

3,3',4,4'-tetrachlorobiphenyl (ISO)

4,4'-diaminodiphenylmethane (ISO)

acrolein (ISO)

acrylamide (ISO)

aflatoxin B1 (ISO)

all-trans-retinoic acid (ISO)

alpha-pinene (ISO)

ammonium chloride (EXP)

antirheumatic drug (ISO)

aristolochic acid A (ISO)

arsenite(3-) (ISO)

arsenous acid (ISO)

benzo[a]pyrene (ISO)

benzo[a]pyrene diol epoxide I (ISO)

beta-naphthoflavone (ISO)

bisphenol A (EXP)

bromobenzene (EXP)

cadmium dichloride (EXP,ISO)

carbon nanotube (ISO)

CGP 52608 (ISO)

chlorpyrifos (ISO)

cisplatin (ISO)

diarsenic trioxide (ISO)

dicrotophos (ISO)

dioxygen (ISO)

ethyl methanesulfonate (ISO)

glyphosate (EXP)

hydroquinone O-beta-D-glucopyranoside (ISO)

kojic acid (ISO)

methotrexate (ISO)

methyl methanesulfonate (ISO)

ochratoxin A (EXP)

ozone (ISO)

paracetamol (EXP,ISO)

perfluorooctane-1-sulfonic acid (ISO)

pirinixic acid (ISO)

resveratrol (ISO)

trichloroethene (EXP)

valproic acid (ISO)

Gene Ontology Annotations Click to see Annotation Detail View

Biological Process

biological_process (ND)

DNA ligation (IEA,ISO)

DNA repair (IEA)

regulation of protein stability (IEA,ISO)

single strand break repair (IBA,IEA,ISO)

Cellular Component

chromatin (IEA,ISO)

nucleolus (IEA,ISO)

nucleoplasm (IEA,ISO)

nucleus (IBA)

Molecular Function

catalytic activity (IEA)

chromatin binding (IEA,ISO)

damaged DNA binding (IEA,ISO)

DNA 5'-adenosine monophosphate hydrolase activity (IBA,IEA,ISO)

DNA binding (IEA)

DNA-3'-diphospho-5'-guanosine diphosphatase (IEA)

double-stranded DNA binding (IEA,ISO)

double-stranded RNA binding (IBA,IEA,ISO)

metal ion binding (IEA)

mismatched DNA binding (IBA)

phosphoglycolate phosphatase activity (IEA,ISO)

phosphoprotein binding (IEA,ISO)

polynucleotide 3'-phosphatase activity (ISO)

protein binding (ISO)

single-strand break-containing DNA binding (IBA)

single-stranded DNA binding (IBA)

Molecular Pathway Annotations Click to see Annotation Detail View

non-homologous end joining pathway of double-strand break repair (ISO)

References

References - curated

#	Reference Title	Reference Citation
1.	Ataxia with oculomotor apraxia type1 (AOA1): novel and recurrent aprataxin mutations, coenzyme Q10 analyses, and clinical findings in Italian patients.	Castellotti B, etal., Neurogenetics. 2011 Aug;12(3):193-201. doi: 10.1007/s10048-011-0281-x. Epub 2011 Apr 5.
2.	A novel mutation of aprataxin associated with ataxia ocular apraxia type 1: phenotypical and genotypical characterization.	Ferrarini M, etal., J Neurol Sci. 2007 Sep 15;260(1-2):219-24. Epub 2007 Jun 18.
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.	The mechanism of double-strand DNA break repair by the nonhomologous DNA end-joining pathway.	Lieber MR Annu Rev Biochem. 2010;79:181-211. doi: 10.1146/annurev.biochem.052308.093131.
5.	Rat ISS GO annotations from MGI mouse gene data--August 2006	MGD data from the GO Consortium
6.	The gene mutated in ataxia-ocular apraxia 1 encodes the new HIT/Zn-finger protein aprataxin.	Moreira MC, etal., Nat Genet 2001 Oct;29(2):189-93.
7.	OMIM Disease Annotation Pipeline	OMIM Disease Annotation Pipeline
8.	GOA pipeline	RGD automated data pipeline
9.	ClinVar Automated Import and Annotation Pipeline	RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
10.	Data Import for Chemical-Gene Interactions	RGD automated import pipeline for gene-chemical interactions
11.	Comprehensive gene review and curation	RGD comprehensive gene curation
12.	Early-onset ataxia with ocular motor apraxia and hypoalbuminemia: the aprataxin gene mutations.	Shimazaki H, etal., Neurology. 2002 Aug 27;59(4):590-5.
13.	Generation and initial analysis of more than 15,000 full-length human and mouse cDNA sequences.	Strausberg RL, etal., Proc Natl Acad Sci U S A. 2002 Dec 24;99(26):16899-903. Epub 2002 Dec 11.

Additional References at PubMed

PMID:14755728	PMID:15044383	PMID:15489334	PMID:16547001	PMID:16777843	PMID:16964241	PMID:17276982	PMID:17519253	PMID:20008512

Genomics

Comparative Map Data

Aptx
(Rattus norvegicus - Norway rat)

Rat Assembly	Chr	Position (strand)	Source	Genome Browsers
Rat Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
mRatBN7.2	5	55,798,896 - 55,822,963 (-)	NCBI	mRatBN7.2	mRatBN7.2
mRatBN7.2 Ensembl	5	55,800,248 - 55,822,855 (-)	Ensembl		mRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx	5	57,767,534 - 57,788,467 (-)	NCBI	Rnor_SHR	UTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0	5	59,586,691 - 59,607,626 (-)	NCBI	Rnor_SHRSP	UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0	5	59,580,671 - 59,601,669 (-)	NCBI	Rnor_WKY	UTH_Rnor_WKY_Bbb_1.0
Rnor_6.0	5	56,987,714 - 57,009,481 (-)	NCBI	Rnor6.0	Rnor_6.0	rn6	Rnor6.0
Rnor_6.0 Ensembl	5	56,987,909 - 57,008,859 (-)	Ensembl	Rnor6.0		rn6	Rnor6.0
Rnor_5.0	5	61,521,843 - 61,543,083 (-)	NCBI	Rnor5.0	Rnor_5.0	rn5	Rnor5.0
RGSC_v3.4	5	58,060,210 - 58,081,165 (-)	NCBI	RGSC3.4	RGSC_v3.4	rn4	RGSC3.4
RGSC_v3.1	5	58,060,392 - 58,081,344 (-)	NCBI
Celera	5	54,414,271 - 54,435,214 (-)	NCBI		Celera
Cytogenetic Map	5	q22	NCBI

APTX
(Homo sapiens - human)

Human Assembly	Chr	Position (strand)	Source	Genome Browsers
Human Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCh38	9	32,972,616 - 33,025,120 (-)	NCBI	GRCh38	GRCh38	hg38	GRCh38
GRCh38.p14 Ensembl	9	32,886,601 - 33,025,130 (-)	Ensembl	GRCh38		hg38	GRCh38
GRCh37	9	32,972,614 - 33,025,118 (-)	NCBI	GRCh37	GRCh37	hg19	GRCh37
Build 36	9	32,962,608 - 32,991,626 (-)	NCBI	NCBI36	Build 36	hg18	NCBI36
Celera	9	32,903,909 - 32,932,925 (-)	NCBI		Celera
Cytogenetic Map	9	p21.1	NCBI
HuRef	9	32,930,986 - 32,960,001 (-)	NCBI		HuRef
CHM1_1	9	32,972,285 - 33,001,325 (-)	NCBI		CHM1_1
T2T-CHM13v2.0	9	32,989,181 - 33,041,681 (-)	NCBI		T2T-CHM13v2.0

Aptx
(Mus musculus - house mouse)

Mouse Assembly	Chr	Position (strand)	Source	Genome Browsers
Mouse Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCm39	4	40,682,078 - 40,703,206 (-)	NCBI	GRCm39	GRCm39	mm39
GRCm39 Ensembl	4	40,682,382 - 40,703,194 (-)	Ensembl		GRCm39 Ensembl
GRCm38	4	40,682,078 - 40,721,667 (-)	NCBI	GRCm38	GRCm38	mm10	GRCm38
GRCm38.p6 Ensembl	4	40,682,382 - 40,703,194 (-)	Ensembl	GRCm38		mm10	GRCm38
MGSCv37	4	40,629,111 - 40,650,220 (-)	NCBI	GRCm37	MGSCv37	mm9	NCBIm37
MGSCv36	4	40,871,049 - 40,891,858 (-)	NCBI		MGSCv36	mm8
Celera	4	40,342,394 - 40,363,460 (-)	NCBI		Celera
Cytogenetic Map	4	A5	NCBI
cM Map	4	20.46	NCBI

Aptx
(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_004955472	2,652,869 - 2,664,272 (+)	Ensembl	ChiLan1.0
ChiLan1.0	NW_004955472	2,645,716 - 2,664,394 (+)	NCBI	ChiLan1.0	ChiLan1.0

APTX
(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	9	91,611,331 - 91,640,405 (+)	NCBI		NHGRI_mPanPan1
Mhudiblu_PPA_v0	9	32,747,409 - 32,819,270 (-)	NCBI	Mhudiblu_PPA_v0	Mhudiblu_PPA_v0	panPan3
PanPan1.1	9	33,556,419 - 33,608,416 (-)	NCBI	panpan1.1	PanPan1.1	panPan2
PanPan1.1 Ensembl	9	33,556,419 - 33,585,060 (-)	Ensembl	panpan1.1		panPan2

APTX
(Canis lupus familiaris - dog)

Dog Assembly	Chr	Position (strand)	Source	Genome Browsers
Dog Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
CanFam3.1	11	50,111,003 - 50,155,937 (-)	NCBI	CanFam3.1	CanFam3.1	canFam3	CanFam3.1
CanFam3.1 Ensembl	11	50,113,073 - 50,132,284 (-)	Ensembl	CanFam3.1		canFam3	CanFam3.1
Dog10K_Boxer_Tasha	11	48,741,830 - 48,752,689 (-)	NCBI		Dog10K_Boxer_Tasha
ROS_Cfam_1.0	11	51,051,842 - 51,096,541 (-)	NCBI		ROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl	11	51,052,518 - 51,072,916 (-)	Ensembl		ROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.1	11	49,716,952 - 49,727,812 (-)	NCBI		UMICH_Zoey_3.1
UNSW_CanFamBas_1.0	11	49,583,853 - 49,594,717 (-)	NCBI		UNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0	11	50,348,839 - 50,359,700 (-)	NCBI		UU_Cfam_GSD_1.0

Aptx
(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_024404947	165,022,018 - 165,052,707 (-)	NCBI		HiC_Itri_2
SpeTri2.0 Ensembl	NW_004936524	1,570,627 - 1,576,329 (-)	Ensembl	SpeTri2.0
SpeTri2.0	NW_004936524	1,569,610 - 1,582,103 (-)	NCBI	SpeTri2.0	SpeTri2.0		SpeTri2.0

APTX
(Sus scrofa - pig)

Pig Assembly	Chr	Position (strand)	Source	Genome Browsers
Pig Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
Sscrofa11.1 Ensembl	10	33,445,148 - 33,543,710 (+)	Ensembl	Sscrofa11.1		susScr11	Sscrofa11.1
Sscrofa11.1	10	33,470,089 - 33,495,584 (+)	NCBI	Sscrofa11.1	Sscrofa11.1	susScr11	Sscrofa11.1
Sscrofa10.2	10	37,724,516 - 37,837,919 (+)	NCBI	Sscrofa10.2	Sscrofa10.2	susScr3

APTX
(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	12	47,239,094 - 47,346,528 (+)	NCBI	ChlSab1.1	ChlSab1.1	chlSab2
ChlSab1.1 Ensembl	12	47,258,798 - 47,287,102 (+)	Ensembl	ChlSab1.1	ChlSab1.1 Ensembl	chlSab2
Vero_WHO_p1.0	NW_023666038	44,140,910 - 44,239,181 (+)	NCBI	Vero_WHO_p1.0	Vero_WHO_p1.0

Aptx
(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_004624736	37,730,072 - 37,749,174 (-)	Ensembl	HetGla_female_1.0	HetGla_female_1.0 Ensembl	hetGla2
HetGla 1.0	NW_004624736	37,729,624 - 37,757,780 (-)	NCBI	HetGla_female_1.0	HetGla 1.0	hetGla2

Variants

Variants in Aptx
171 total Variants

miRNA Target Status

Predicted Target Of

	Summary Value
Count of predictions:	50
Count of miRNA genes:	47
Interacting mature miRNAs:	50
Transcripts:	ENSRNOT00000046463
Prediction methods:	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.

QTLs in Region (mRatBN7.2)

The following QTLs overlap with this region.

RGD ID	Symbol	Name	LOD	P Value	Trait	Sub Trait	Chr	Start	Stop	Species
1331756	Rf34	Renal function QTL 34	4.16275		kidney blood vessel physiology trait (VT:0100012)	absolute change in renal blood flow rate (CMO:0001168)	5	1	90450412	Rat
70212	Niddm25	Non-insulin dependent diabetes mellitus QTL 25	3.54		blood glucose amount (VT:0000188)	blood glucose level (CMO:0000046)	5	1	131345958	Rat
1331771	Rf35	Renal function QTL 35	4.36965		kidney blood vessel physiology trait (VT:0100012)	absolute change in renal blood flow rate (CMO:0001168)	5	729470	86724018	Rat
1576314	Eutr1	Estrogen induced uterine response QTL 1			uterus integrity trait (VT:0010575)	pyometritis severity score (CMO:0002009)	5	2138965	166875058	Rat
8662454	Vetf3	Vascular elastic tissue fragility QTL 3	27.4		artery integrity trait (VT:0010639)	number of ruptures of the internal elastic lamina of the abdominal aorta and iliac arteries (CMO:0002562)	5	2282226	69540447	Rat
7394712	Emca13	Estrogen-induced mammary cancer QTL 13			mammary gland integrity trait (VT:0010552)	mammary tumor number (CMO:0000343)	5	9823266	99753708	Rat
1641903	Alcrsp3	Alcohol response QTL 3			response to alcohol trait (VT:0010489)	duration of loss of righting reflex (CMO:0002289)	5	12689285	57689285	Rat
634305	Mamtr1	Mammary tumor resistance QTL 1		0.0001	mammary gland integrity trait (VT:0010552)	mammary tumor number (CMO:0000343)	5	12789751	113558310	Rat
1600358	Mamtr5	Mammary tumor resistance QTL 5			mammary gland integrity trait (VT:0010552)	mammary tumor number (CMO:0000343)	5	18873947	63873947	Rat
1358353	Srcrtb2	Stress Responsive Cort Basal QTL 2	3.48	0.003	blood corticosterone amount (VT:0005345)	plasma corticosterone level (CMO:0001173)	5	18873947	74251464	Rat
8552954	Pigfal14	Plasma insulin-like growth factor 1 level QTL 14	9		blood insulin-like growth factor amount (VT:0010479)	plasma insulin-like growth factor 1 level (CMO:0001299)	5	21226744	66226744	Rat
1578767	Stresp17	Stress response QTL 17	4.3	0.01	blood aldosterone amount (VT:0005346)	plasma aldosterone level (CMO:0000551)	5	27955440	72955440	Rat
1578776	Stresp18	Stress response QTL 18	2.9		thymus mass (VT:0004954)	thymus wet weight (CMO:0000855)	5	27955440	72955440	Rat
6903292	Stl28	Serum triglyceride level QTL 28	2.6	0.0073	blood triglyceride amount (VT:0002644)	plasma triglyceride level (CMO:0000548)	5	28515489	73515489	Rat
6903306	Scl35	Serum cholesterol QTL 35	2.6	0.0073	blood cholesterol amount (VT:0000180)	plasma total cholesterol level (CMO:0000585)	5	28515489	73515489	Rat
2290448	Scl54	Serum cholesterol level QTL 54	2.93		blood cholesterol amount (VT:0000180)	plasma total cholesterol level (CMO:0000585)	5	31663789	131345958	Rat
1598807	Glom12	Glomerulus QTL 12	2.7		kidney glomerulus morphology trait (VT:0005325)	index of glomerular damage (CMO:0001135)	5	33215665	78215665	Rat
1298067	Scl15	Serum cholesterol level QTL 15	4.8	0.001	blood cholesterol amount (VT:0000180)	plasma total cholesterol level (CMO:0000585)	5	33215665	78215665	Rat
1302786	Kidm8	Kidney mass QTL 8	28.15		kidney mass (VT:0002707)	both kidneys wet weight to body weight ratio (CMO:0000340)	5	33215665	78215665	Rat
1576317	Eutr2	Estrogen induced uterine response QTL 2		0.01	uterus integrity trait (VT:0010575)	pyometritis severity score (CMO:0002009)	5	34730116	104251008	Rat
2316959	Gluco59	Glucose level QTL 59	4.7		blood glucose amount (VT:0000188)	blood glucose level (CMO:0000046)	5	34944474	113558310	Rat
1641922	Alcrsp8	Alcohol response QTL 8			alcohol metabolism trait (VT:0015089)	blood ethanol level (CMO:0000535)	5	35189153	68564008	Rat
1641912	Alcrsp18	Alcohol response QTL 18			response to alcohol trait (VT:0010489)	duration of loss of righting reflex (CMO:0002289)	5	35189153	141643988	Rat
1549845	Scl44	Serum cholesterol level QTL 44	6		blood cholesterol amount (VT:0000180)	serum total cholesterol level (CMO:0000363)	5	40128307	148607290	Rat
1331773	Scl26	Serum cholesterol level QTL 26	3.065		blood cholesterol amount (VT:0000180)	serum total cholesterol level (CMO:0000363)	5	43726656	86724018	Rat
1331801	Rf33	Renal function QTL 33	4.149		kidney blood vessel physiology trait (VT:0100012)	absolute change in renal vascular resistance (CMO:0001900)	5	43726656	129132602	Rat
1578766	Tcas11	Tongue tumor susceptibility QTL 11	4.12		tongue integrity trait (VT:0010553)	number of squamous cell tumors of the tongue with diameter greater than 3 mm (CMO:0001950)	5	46711509	161317411	Rat
1300115	Hrtrt7	Heart rate QTL 7	2.76		heart pumping trait (VT:2000009)	heart rate (CMO:0000002)	5	47869062	90099692	Rat
9589025	Epfw7	Epididymal fat weight QTL 7	20.66	0.001	epididymal fat pad mass (VT:0010421)	epididymal fat pad weight to body weight ratio (CMO:0000658)	5	49463600	94463600	Rat
7411561	Bw134	Body weight QTL 134	24	0.001	body mass (VT:0001259)	body weight gain (CMO:0000420)	5	49463600	94463600	Rat
1576312	Emca8	Estrogen-induced mammary cancer QTL 8	4.1		mammary gland integrity trait (VT:0010552)	mammary tumor number (CMO:0000343)	5	50328551	141643988	Rat
2303615	Vencon7	Ventilatory control QTL 7		0.001	respiration trait (VT:0001943)	respiration rate (CMO:0000289)	5	50983895	95983895	Rat
2303574	Gluco42	Glucose level QTL 42	2		blood glucose amount (VT:0000188)	blood glucose level (CMO:0000046)	5	53496719	98496719	Rat
61359	Eaex	Experimental allergic encephalomyelitis QTL x	3		nervous system integrity trait (VT:0010566)	post-insult time to onset of experimental autoimmune encephalomyelitis (CMO:0001422)	5	55715622	100715622	Rat
70189	Mcs5	Mammary carcinoma susceptibility QTL 5	10.51		mammary gland integrity trait (VT:0010552)	mammary tumor number (CMO:0000343)	5	55805606	132207589	Rat

Markers in Region

D5Mgh26

Rat Assembly	Chr	Position (strand)	Source	JBrowse
mRatBN7.2	5	55,805,606 - 55,805,750 (+)	MAPPER	mRatBN7.2
Rnor_6.0	5	56,991,667 - 56,991,808	NCBI	Rnor6.0
Rnor_5.0	5	61,525,796 - 61,525,937	UniSTS	Rnor5.0
RGSC_v3.4	5	58,063,971 - 58,064,113	RGD	RGSC3.4
RGSC_v3.4	5	58,063,972 - 58,064,113	UniSTS	RGSC3.4
RGSC_v3.1	5	58,064,151 - 58,064,292	RGD
Celera	5	54,418,033 - 54,418,174	UniSTS
RH 3.4 Map	5	271.11	UniSTS
RH 3.4 Map	5	271.11	RGD
RH 2.0 Map	5	324.1	RGD
Cytogenetic Map	5	q22	UniSTS

BE103017

Rat Assembly	Chr	Position (strand)	Source	JBrowse
mRatBN7.2	5	55,801,665 - 55,801,826 (+)	MAPPER	mRatBN7.2
Rnor_6.0	5	56,987,732 - 56,987,892	NCBI	Rnor6.0
Rnor_5.0	5	61,521,861 - 61,522,021	UniSTS	Rnor5.0
RGSC_v3.4	5	58,060,037 - 58,060,197	UniSTS	RGSC3.4
Celera	5	54,414,098 - 54,414,258	UniSTS
RH 3.4 Map	5	270.71	UniSTS
Cytogenetic Map	5	q22	UniSTS

Expression

RNA-SEQ Expression

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

	alimentary part of gastrointestinal system	circulatory system	endocrine system	exocrine system	hemolymphoid system	hepatobiliary system	integumental system	musculoskeletal system	nervous system	renal system	reproductive system	respiratory system	appendage
High
Medium	3	20	21	6	19	6			73	34	41	11
Low		23	36	35		35	8	11	1	1			8
Below cutoff

View RNA-SEQ Expression Data

Sequence

Nucleotide Sequences


RefSeq Transcripts	NM_148889	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	XM_006238027	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	XM_006238028	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	XM_006238029	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	XM_008763607	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	XM_017593171	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	XM_039109327	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	XM_039109328	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
GenBank Nucleotide	AC119348	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	AF398235	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	BC078716	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	CH473962	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	FQ214915	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	JACYVU010000161	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles

RefSeq Acc Id:

ENSRNOT00000046463 ⟹ ENSRNOP00000046400

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
mRatBN7.2 Ensembl	5	55,800,248 - 55,822,855 (-)	Ensembl
Rnor_6.0 Ensembl	5	56,987,909 - 57,008,859 (-)	Ensembl

RefSeq Acc Id:

ENSRNOT00000090891 ⟹ ENSRNOP00000072443

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
mRatBN7.2 Ensembl	5	55,800,248 - 55,815,681 (-)	Ensembl
Rnor_6.0 Ensembl	5	56,987,909 - 57,008,795 (-)	Ensembl

RefSeq Acc Id:

ENSRNOT00000094147 ⟹ ENSRNOP00000094856

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
mRatBN7.2 Ensembl	5	55,800,248 - 55,822,855 (-)	Ensembl

RefSeq Acc Id:

ENSRNOT00000115715 ⟹ ENSRNOP00000094475

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
mRatBN7.2 Ensembl	5	55,800,248 - 55,821,492 (-)	Ensembl

RefSeq Acc Id:

NM_148889 ⟹ NP_683687

RefSeq Status:

PROVISIONAL

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
mRatBN7.2	5	55,801,839 - 55,822,805 (-)	NCBI
Rnor_6.0	5	56,987,905 - 57,008,859 (-)	NCBI
Rnor_5.0	5	61,521,843 - 61,543,083 (-)	NCBI
RGSC_v3.4	5	58,060,210 - 58,081,165 (-)	RGD
Celera	5	54,414,271 - 54,435,214 (-)	RGD

Sequence:

show sequence

GCCTGCTTTCGTAGCTGGTTGGGTTAGAAGCCAGCAGGGGCGTTTGGCCGGGGCTGCTAACCCG
GAGCGGATACCTTGAAGGTGGAGTTCGAGGTTTCCTTCTGGGTGGACCAAGCCCCACCCTTTCG
TCCTGTTCAGATGGTAACAATATTCTCATCTTTAAGAATATGATTTCTTTGATCTTCATTTCTG
AATACAGCAATCGTGCAGAAGGCCTGCATGCTGCTTGGGCAGGAGGCAAGATATCCCCCAAGGT
ACCAGAAGCTCGAACATTGATAAGGCTCTAGAGCAGTGGCTCTCGACCCCTTCCCCAGGGGTCA
CATATCAGAGCCAAGATGCGGGTGTGCTGGTTGGTGAGACAGGACTGCTGGCACCAGCGAATCA
AACTTCCCCATTTAGAAGCTGTTGTGATTGGTCGAAGCCCGGAGACCAAGATCACAGATAAGAA
ATGTTCCCGACAGCAAGTACAGTTGAAAGCGGAGTGTAACAAGAGATATGTCAACGTTAAGCAG
ATGGGGGTCAATCCCACCAGCATTGACGAAGTCGTCATTGGGAAGGACCGGGAGATGAAGCTGC
TGCCTGGTCAGGTTCTCCACATGGTGAATGAACTTTATCCATACATGGTGGAGTTTGAGGAGGT
GGCAGAGAGCCCTAACGTAACACAGAGGAAGAGAAAGAGGCCAGACTGTGATAGTCAGGAGATG
GAAGCTGAGGCTGGGGCCAGCCCCAGCCAGTGCTCTGTGTCCCCTAAGACGGGCAAGCATGGAG
CCGCCAAGGAGGAATCACTGGGCCACTGGAGTCAAGGCTTGAAGATATCTATGAAAGACCCCAA
AATGCAGGTTTATAAGGATGATCAGGTGGTGGTGATTAAGGATAAATACCCCAAGGCCCGGCAC
CACTGGCTGGTCTTACCATGGGCCTCCATTTCCAGTCTGAAGGTTGTGACCAGTGAACACCTCG
AACTTCTCAAACACATGCACGCAGTAGGGGAAAAGGTGATAGCAGATTTTACTGGATCCAGCAA
ACTGCGCTTCCGACTGGGTTACCATGCCATTCCCAGCATGAGCCATGTACATCTTCATGTGATC
AGCCAGGATTTTGATTCTCCTTGCCTTAAAAACAAAAAGCATTGGAATTCTTTCAATACAGAAT
ATTTTCTGGAGTCACAAGCTGTGATCAAGATGGTTCAGGAAGCTGGCAGAGTGACTGTTAAAGA
TGGGACTTGCGAACTCTTGAAGCTGCCTCTCCGTTGCCATGAGTGTCAGCAGCTGCTGCCTTCC
ATCCCACAGCTGAAGGAGCACCTCAGGAAGCACTGGGGCGGGTGACACTCGCCTTGGTGACCGA
GTGCAGTGCTAGCATCATTCTGCATTGCCTGCGCTCCGTTCAGTCCTGAACTAAAGCATGCAGC
TCTTCAAAAAAAAAAAAAAAAAAAAAAAAAA

hide sequence

RefSeq Acc Id:

XM_006238027 ⟹ XP_006238089

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
mRatBN7.2	5	55,798,896 - 55,822,855 (-)	NCBI
Rnor_6.0	5	56,987,714 - 57,009,479 (-)	NCBI
Rnor_5.0	5	61,521,843 - 61,543,083 (-)	NCBI

Sequence:

show sequence

CAGGGTTCCTCTGTCTCTCTCTTTAGTCTTTTTCTCCTTAGAGAAGGAAAGTGTAATTTGAACG
TGAGTGGTTGGTAAAGCACTCCAGCTTGTAGCTTAACCGATGGCTTCAAAGCTGTGTTTGGTAG
CTCGCACCTGCAATCCTAGCACTGGGGAATCTAAGGCAAGAGGAGATTCTGGCGAGTTCAAGGC
CAATTTGGGCTACAGAATGAATTTGTCTCACTACCTCCAACCTCGTTCCTTCCCTTTCAAAGAT
GGCTTTAACATATAGCAAGCTTCCTGAGGAGGAAGTGCTAAGAGACGACTTGGCTGCATAGAAA
AGCCACAGGAGATTGCTGTCTGAAATCTCTCCGGATTCAGACCCTGGGAGGCTATGACAGCTAG
ATGCCTCAGAGAAGGCAAAGGAGTTATCTTCACGGGAAACAACTAGCTGCTACGACCACTTTTC
GACCAGGGTATCCGGCAAGAGAACGTTTCGGCCAATTCTGGAAAAAACTCTGAAATCATCACCA
GTTGCTAGGCAGCAGTTTGTGACATCATCTTTCAGCACCGGAAGCGGCGAGGCGCAGCGGAGTA
GCGTGGAGGTTTGTAAGTGTGCAGTCGAGGTAAGCTAGTGGTCGGCCTGCTTTCGTAGCTGGTT
GGGTTAGAAGCCAGCAGGGGCGTTTGGCCGGGGCTGCTAACCCGGAGCGGATACCTTGAAGGTG
GAGTTCGAGGTTTCCTTCTGGGTGGACCAAGCCCCACCCTTTCGTCCTGTTCAGAGCCAAGATG
CGGGTGTGCTGGTTGGTGAGACAGGACTGCTGGCACCAGCGAATCAAACTTCCCCATTTAGAAG
CTGTTGTGATTGGTCGAAGCCCGGAGACCAAGATCACAGATAAGAAATGTTCCCGACAGCAAGT
ACAGTTGAAAGCGGAGTGTAACAAGAGATATGTCAACGTTAAGCAGATGGGGGTCAATCCCACC
AGCATTGACGAAGTCGTCATTGGGAAGGACCGGGAGATGAAGCTGCTGCCTGGTCAGGTTCTCC
ACATGGTGAATGAACTTTATCCATACATGGTGGAGTTTGAGGAGGTGGCAGAGAGCCCTAACGT
AACACAGAGGAAGAGAAAGAGGCCAGACTGTGATAGTCAGGAGATGGAAGCTGAGGCTGGGGCC
AGCCCCAGCCAGTGCTCTGTGTCCCCTAAGACGGGCAAGCATGGAGCCGCCAAGGAGGAATCAC
TGGGCCACTGGAGTCAAGGCTTGAAGATATCTATGAAAGACCCCAAAATGCAGGTTTATAAGGA
TGATCAGGTGGTGGTGATTAAGGATAAATACCCCAAGGCCCGGCACCACTGGCTGGTCTTACCA
TGGGCCTCCATTTCCAGTCTGAAGGTTGTGACCAGTGAACACCTCGAACTTCTCAAACACATGC
ACGCAGTAGGGGAAAAGGTGATAGCAGATTTTACTGGATCCAGCAAACTGCGCTTCCGACTGGG
TTACCATGCCATTCCCAGCATGAGCCATGTACATCTTCATGTGATCAGCCAGGATTTTGATTCT
CCTTGCCTTAAAAACAAAAAGCATTGGAATTCTTTCAATACAGAATATTTTCTGGAGTCACAAG
CTGTGATCAAGATGGTTCAGGAAGCTGGCAGAGTGACTGTTAAAGATGGGACTTGCGAACTCTT
GAAGCTGCCTCTCCGTTGCCATGAGTGTCAGCAGCTGCTGCCTTCCATCCCACAGCTGAAGGAG
CACCTCAGGAAGCACTGGGGCGGGTGACACTCGCCTTGGTGACCGAGTGCAGTGCTAGCATCAT
TCTGCATTGCCTGCGCTCCGTTCAGTCCTGAACTAAAGCATGCAGCTCTTCAAAACAAAGCTTA
TTATTCTTGAGTGACCACACAGGGTGACTCTGGGTCAGGAACTGGGAATATGGGTTTGTATGGT
ATATTTTCTGGTAATGGAGGATGAGACATGCCTGATCACTCTTCCCAAGACCATGTCAGGCCTG
ACTAATAAGAGGGCAGAGCCAGCTTGAGGTTCAAATACAAGATGTAGAAGCAGA

hide sequence

RefSeq Acc Id:

XM_006238028 ⟹ XP_006238090

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
mRatBN7.2	5	55,798,896 - 55,822,963 (-)	NCBI
Rnor_6.0	5	56,987,714 - 57,009,480 (-)	NCBI
Rnor_5.0	5	61,521,843 - 61,543,083 (-)	NCBI

Sequence:

show sequence

GCAGGGTTCCTCTGTCTCTCTCTTTAGTCTTTTTCTCCTTAGAGAAGGAAAGTGTAATTTGAAC
GTGAGTGGTTGGTAAAGCACTCCAGCTTGTAGCTTAACCGATGGCTTCAAAGCTGTGTTTGGTA
GCTCGCACCTGCAATCCTAGCACTGGGGAATCTAAGGCAAGAGGAGATTCTGGCGAGTTCAAGG
CCAATTTGGGCTACAGAATGAATTTGTCTCACTACCTCCAACCTCGTTCCTTCCCTTTCAAAGA
TGGCTTTAACATATAGCAAGCTTCCTGAGGAGGAAGTGCTAAGAGACGACTTGGCTGCATAGAA
AAGCCACAGGAGATTGCTGTCTGAAATCTCTCCGGATTCAGACCCTGGGAGGCTATGACAGCTA
GATGCCTCAGAGAAGGCAAAGGAGTTATCTTCACGGGAAACAACTAGCTGCTACGACCACTTTT
CGACCAGGGTATCCGGCAAGAGAACGTTTCGGCCAATTCTGGAAAAAACTCTGAAATCATCACC
AGTTGCTAGGCAGCAGTTTGTGACATCATCTTTCAGCACCGGAAGCGGCGAGGCGCAGCGGAGT
AGCGTGGAGGTTTGTAAGTGTGCAGTCGAGAGCCAAGATGCGGGTGTGCTGGTTGGTGAGACAG
GACTGCTGGCACCAGCGAATCAAACTTCCCCATTTAGAAGCTGTTGTGATTGGTCGAAGCCCGG
AGACCAAGATCACAGATAAGAAATGTTCCCGACAGCAAGTACAGTTGAAAGCGGAGTGTAACAA
GAGATATGTCAACGTTAAGCAGATGGGGGTCAATCCCACCAGCATTGACGAAGTCGTCATTGGG
AAGGACCGGGAGATGAAGCTGCTGCCTGGTCAGGTTCTCCACATGGTGAATGAACTTTATCCAT
ACATGGTGGAGTTTGAGGAGGTGGCAGAGAGCCCTAACGTAACACAGAGGAAGAGAAAGAGGCC
AGACTGTGATAGTCAGGAGATGGAAGCTGAGGCTGGGGCCAGCCCCAGCCAGTGCTCTGTGTCC
CCTAAGACGGGCAAGCATGGAGCCGCCAAGGAGGAATCACTGGGCCACTGGAGTCAAGGCTTGA
AGATATCTATGAAAGACCCCAAAATGCAGGTTTATAAGGATGATCAGGTGGTGGTGATTAAGGA
TAAATACCCCAAGGCCCGGCACCACTGGCTGGTCTTACCATGGGCCTCCATTTCCAGTCTGAAG
GTTGTGACCAGTGAACACCTCGAACTTCTCAAACACATGCACGCAGTAGGGGAAAAGGTGATAG
CAGATTTTACTGGATCCAGCAAACTGCGCTTCCGACTGGGTTACCATGCCATTCCCAGCATGAG
CCATGTACATCTTCATGTGATCAGCCAGGATTTTGATTCTCCTTGCCTTAAAAACAAAAAGCAT
TGGAATTCTTTCAATACAGAATATTTTCTGGAGTCACAAGCTGTGATCAAGATGGTTCAGGAAG
CTGGCAGAGTGACTGTTAAAGATGGGACTTGCGAACTCTTGAAGCTGCCTCTCCGTTGCCATGA
GTGTCAGCAGCTGCTGCCTTCCATCCCACAGCTGAAGGAGCACCTCAGGAAGCACTGGGGCGGG
TGACACTCGCCTTGGTGACCGAGTGCAGTGCTAGCATCATTCTGCATTGCCTGCGCTCCGTTCA
GTCCTGAACTAAAGCATGCAGCTCTTCAAAACAAAGCTTATTATTCTTGAGTGACCACACAGGG
TGACTCTGGGTCAGGAACTGGGAATATGGGTTTGTATGGTATATTTTCTGGTAATGGAGGATGA
GACATGCCTGATCACTCTTCCCAAGACCATGTCAGGCCTGACTAATAAGAGGGCAGAGCCAGCT
TGAGGTTCAAATACAAGATGTAGAAGCAGA

hide sequence

RefSeq Acc Id:

XM_006238029 ⟹ XP_006238091

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
mRatBN7.2	5	55,798,896 - 55,815,691 (-)	NCBI
Rnor_6.0	5	56,987,714 - 57,001,697 (-)	NCBI
Rnor_5.0	5	61,521,843 - 61,543,083 (-)	NCBI

Sequence:

show sequence

AGCGAATCAAACTTCCCCATTTAGAAGCTGTTGTGATTGGTCGAAGCCCGGAGACCAAGATCAC
AGATAAGAAATGTTCCCGACAGCAAGTTGAAAGCGGAGTGTAACAAGAGATATGTCAACGTTAA
GCAGATGGGGGTCAATCCCACCAGCATTGACGAAGTCGTCATTGGGAAGGACCGGGAGATGAAG
CTGCTGCCTGGTCAGGTTCTCCACATGGTGAATGAACTTTATCCATACATGGTGGAGTTTGAGG
AGGTGGCAGAGAGCCCTAACGTAACACAGAGGAAGAGAAAGAGGCCAGACTGTGATAGTCAGGA
GATGGAAGCTGAGGCTGGGGCCAGCCCCAGCCAGTGCTCTGTGTCCCCTAAGACGGGCAAGCAT
GGAGCCGCCAAGGAGGAATCACTGGGCCACTGGAGTCAAGGCTTGAAGATATCTATGAAAGACC
CCAAAATGCAGGTTTATAAGGATGATCAGGTGGTGGTGATTAAGGATAAATACCCCAAGGCCCG
GCACCACTGGCTGGTCTTACCATGGGCCTCCATTTCCAGTCTGAAGGTTGTGACCAGTGAACAC
CTCGAACTTCTCAAACACATGCACGCAGTAGGGGAAAAGGTGATAGCAGATTTTACTGGATCCA
GCAAACTGCGCTTCCGACTGGGTTACCATGCCATTCCCAGCATGAGCCATGTACATCTTCATGT
GATCAGCCAGGATTTTGATTCTCCTTGCCTTAAAAACAAAAAGCATTGGAATTCTTTCAATACA
GAATATTTTCTGGAGTCACAAGCTGTGATCAAGATGGTTCAGGAAGCTGGCAGAGTGACTGTTA
AAGATGGGACTTGCGAACTCTTGAAGCTGCCTCTCCGTTGCCATGAGTGTCAGCAGCTGCTGCC
TTCCATCCCACAGCTGAAGGAGCACCTCAGGAAGCACTGGGGCGGGTGACACTCGCCTTGGTGA
CCGAGTGCAGTGCTAGCATCATTCTGCATTGCCTGCGCTCCGTTCAGTCCTGAACTAAAGCATG
CAGCTCTTCAAAACAAAGCTTATTATTCTTGAGTGACCACACAGGGTGACTCTGGGTCAGGAAC
TGGGAATATGGGTTTGTATGGTATATTTTCTGGTAATGGAGGATGAGACATGCCTGATCACTCT
TCCCAAGACCATGTCAGGCCTGACTAATAAGAGGGCAGAGCCAGCTTGAGGTTCAAATACAAGA
TGTAGAAGCAGA

hide sequence

RefSeq Acc Id:

XM_008763607 ⟹ XP_008761829

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
mRatBN7.2	5	55,798,896 - 55,822,814 (-)	NCBI
Rnor_6.0	5	56,987,714 - 57,009,481 (-)	NCBI

Sequence:

show sequence

AGCAGGGTTCCTCTGTCTCTCTCTTTAGTCTTTTTCTCCTTAGAGAAGGAAAGTGTAATTTGAA
CGTGAGTGGTTGGTAAAGCACTCCAGCTTGTAGCTTAACCGATGGCTTCAAAGCTGTGTTTGGT
AGCTCGCACCTGCAATCCTAGCACTGGGGAATCTAAGGCAAGAGGAGATTCTGGCGAGTTCAAG
GCCAATTTGGGCTACAGAATGAATTTGTCTCACTACCTCCAACCTCGTTCCTTCCCTTTCAAAG
ATGGCTTTAACATATAGCAAGCTTCCTGAGGAGGAAGTGCTAAGAGACGACTTGGCTGCATAGA
AAAGCCACAGGAGATTGCTGTCTGAAATCTCTCCGGATTCAGACCCTGGGAGGCTATGACAGCT
AGATGCCTCAGAGAAGGCAAAGGAGTTATCTTCACGGGAAACAACTAGCTGCTACGACCACTTT
TCGACCAGGGTATCCGGCAAGAGAACGTTTCGGCCAATTCTGGAAAAAACTCTGAAATCATCAC
CAGTTGCTAGGCAGCAGTTTGTGACATCATCTTTCAGCACCGGAAGCGGCGAGGCGCAGCGGAG
TAGCGTGGAGGTTTGTAAGTGTGCAGTCGAGGTAAGCTAGTGGTCGGCCTGCTTTCGTAGCTGG
TTGGGTTAGAAGCCAGCAGGGGCGTTTGGCCGGGGCTGCTAACCCGGAGCGGATACCTTGAAGG
TGGAGTTCGAGGTTTCCTTCTGGGTGGACCAAGCCCCACCCTTTCGTCCTGTTCAGTTGAAAGC
GGAGTGTAACAAGAGATATGTCAACGTTAAGCAGATGGGGGTCAATCCCACCAGCATTGACGAA
GTCGTCATTGGGAAGGACCGGGAGATGAAGCTGCTGCCTGGTCAGGTTCTCCACATGGTGAATG
AACTTTATCCATACATGGTGGAGTTTGAGGAGGTGGCAGAGAGCCCTAACGTAACACAGAGGAA
GAGAAAGAGGCCAGACTGTGATAGTCAGGAGATGGAAGCTGAGGCTGGGGCCAGCCCCAGCCAG
TGCTCTGTGTCCCCTAAGACGGGCAAGCATGGAGCCGCCAAGGAGGAATCACTGGGCCACTGGA
GTCAAGGCTTGAAGATATCTATGAAAGACCCCAAAATGCAGGTTTATAAGGATGATCAGGTGGT
GGTGATTAAGGATAAATACCCCAAGGCCCGGCACCACTGGCTGGTCTTACCATGGGCCTCCATT
TCCAGTCTGAAGGTTGTGACCAGTGAACACCTCGAACTTCTCAAACACATGCACGCAGTAGGGG
AAAAGGTGATAGCAGATTTTACTGGATCCAGCAAACTGCGCTTCCGACTGGGTTACCATGCCAT
TCCCAGCATGAGCCATGTACATCTTCATGTGATCAGCCAGGATTTTGATTCTCCTTGCCTTAAA
AACAAAAAGCATTGGAATTCTTTCAATACAGAATATTTTCTGGAGTCACAAGCTGTGATCAAGA
TGGTTCAGGAAGCTGGCAGAGTGACTGTTAAAGATGGGACTTGCGAACTCTTGAAGCTGCCTCT
CCGTTGCCATGAGTGTCAGCAGCTGCTGCCTTCCATCCCACAGCTGAAGGAGCACCTCAGGAAG
CACTGGGGCGGGTGACACTCGCCTTGGTGACCGAGTGCAGTGCTAGCATCATTCTGCATTGCCT
GCGCTCCGTTCAGTCCTGAACTAAAGCATGCAGCTCTTCAAAACAAAGCTTATTATTCTTGAGT
GACCACACAGGGTGACTCTGGGTCAGGAACTGGGAATATGGGTTTGTATGGTATATTTTCTGGT
AATGGAGGATGAGACATGCCTGATCACTCTTCCCAAGACCATGTCAGGCCTGACTAATAAGAGG
GCAGAGCCAGCTTGAGGTTCAAATACAAGATGTAGAAGCAGA

hide sequence

RefSeq Acc Id:

XM_017593171 ⟹ XP_017448660

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
mRatBN7.2	5	55,798,896 - 55,822,814 (-)	NCBI
Rnor_6.0	5	56,987,714 - 57,003,882 (-)	NCBI

Sequence:

show sequence

ATGGTAACAATATTCTCATCTTTAAGAATATGATTTCTTTGATCTTCATTTCTGAATACAGCAA
TCGTGCAGAAGGCCTGCATGCTGCTTGGGCAGGAGGCAAGATATCCCCCAAGAGCCAAGATGCG
GGTGTGCTGGTTGGTGAGACAGGACTGCTGGCACCAGCGAATCAAACTTCCCCATTTAGAAGCT
GTTGTGATTGGTCGAAGCCCGGAGACCAAGATCACAGATAAGAAATGTTCCCGACAGCAAGTAC
AGTTGAAAGCGGAGTGTAACAAGAGATATGTCAACGTTAAGCAGATGGGGGTCAATCCCACCAG
CATTGACGAAGTCGTCATTGGGAAGGACCGGGAGATGAAGCTGCTGCCTGGTCAGGTTCTCCAC
ATGGTGAATGAACTTTATCCATACATGGTGGAGTTTGAGGAGGTGGCAGAGAGCCCTAACGTAA
CACAGAGGAAGAGAAAGAGGCCAGACTGTGATAGTCAGGAGATGGAAGCTGAGGCTGGGGCCAG
CCCCAGCCAGTGCTCTGTGTCCCCTAAGACGGGCAAGCATGGAGCCGCCAAGGAGGAATCACTG
GGCCACTGGAGTCAAGGCTTGAAGATATCTATGAAAGACCCCAAAATGCAGGTTTATAAGGATG
ATCAGGTGGTGGTGATTAAGGATAAATACCCCAAGGCCCGGCACCACTGGCTGGTCTTACCATG
GGCCTCCATTTCCAGTCTGAAGGTTGTGACCAGTGAACACCTCGAACTTCTCAAACACATGCAC
GCAGTAGGGGAAAAGGTGATAGCAGATTTTACTGGATCCAGCAAACTGCGCTTCCGACTGGGTT
ACCATGCCATTCCCAGCATGAGCCATGTACATCTTCATGTGATCAGCCAGGATTTTGATTCTCC
TTGCCTTAAAAACAAAAAGCATTGGAATTCTTTCAATACAGAATATTTTCTGGAGTCACAAGCT
GTGATCAAGATGGTTCAGGAAGCTGGCAGAGTGACTGTTAAAGATGGGACTTGCGAACTCTTGA
AGCTGCCTCTCCGTTGCCATGAGTGTCAGCAGCTGCTGCCTTCCATCCCACAGCTGAAGGAGCA
CCTCAGGAAGCACTGGGGCGGGTGACACTCGCCTTGGTGACCGAGTGCAGTGCTAGCATCATTC
TGCATTGCCTGCGCTCCGTTCAGTCCTGAACTAAAGCATGCAGCTCTTCAAAACAAAGCTTATT
ATTCTTGAGTGACCACACAGGGTGACTCTGGGTCAGGAACTGGGAATATGGGTTTGTATGGTAT
ATTTTCTGGTAATGGAGGATGAGACATGCCTGATCACTCTTCCCAAGACCATGTCAGGCCTGAC
TAATAAGAGGGCAGAGCCAGCTTGAGGTTCAAATACAAGATGTAGAAGCAGA

hide sequence

RefSeq Acc Id:

XM_039109327 ⟹ XP_038965255

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
mRatBN7.2	5	55,798,896 - 55,822,814 (-)	NCBI

RefSeq Acc Id:

XM_039109328 ⟹ XP_038965256

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
mRatBN7.2	5	55,798,896 - 55,822,814 (-)	NCBI

Protein Sequences


Protein RefSeqs	NP_683687	(Get FASTA)	NCBI Sequence Viewer
	XP_006238089	(Get FASTA)	NCBI Sequence Viewer
	XP_006238090	(Get FASTA)	NCBI Sequence Viewer
	XP_006238091	(Get FASTA)	NCBI Sequence Viewer
	XP_008761829	(Get FASTA)	NCBI Sequence Viewer
	XP_017448660	(Get FASTA)	NCBI Sequence Viewer
	XP_038965255	(Get FASTA)	NCBI Sequence Viewer
	XP_038965256	(Get FASTA)	NCBI Sequence Viewer
GenBank Protein	AAH78716	(Get FASTA)	NCBI Sequence Viewer
	AAM90583	(Get FASTA)	NCBI Sequence Viewer
	EDL98638	(Get FASTA)	NCBI Sequence Viewer
	EDL98639	(Get FASTA)	NCBI Sequence Viewer
	EDL98640	(Get FASTA)	NCBI Sequence Viewer
	Q8K4H4	(Get FASTA)	NCBI Sequence Viewer

RefSeq Acc Id:

NP_683687 ⟸ NM_148889

- UniProtKB:

Q8K4H4 (UniProtKB/Swiss-Prot), A6IIS0 (UniProtKB/TrEMBL), A0A8L2R5W7 (UniProtKB/TrEMBL)

- Sequence:

show sequence

MRVCWLVRQDCWHQRIKLPHLEAVVIGRSPETKITDKKCSRQQVQLKAECNKRYVNVKQMGVNP
TSIDEVVIGKDREMKLLPGQVLHMVNELYPYMVEFEEVAESPNVTQRKRKRPDCDSQEMEAEAG
ASPSQCSVSPKTGKHGAAKEESLGHWSQGLKISMKDPKMQVYKDDQVVVIKDKYPKARHHWLVL
PWASISSLKVVTSEHLELLKHMHAVGEKVIADFTGSSKLRFRLGYHAIPSMSHVHLHVISQDFD
SPCLKNKKHWNSFNTEYFLESQAVIKMVQEAGRVTVKDGTCELLKLPLRCHECQQLLPSIPQLK
EHLRKHWGG

hide sequence

RefSeq Acc Id:	XP_006238090 ⟸ XM_006238028
- Peptide Label:	isoform X2
- UniProtKB:	Q8K4H4 (UniProtKB/Swiss-Prot), A6IIS0 (UniProtKB/TrEMBL), A0A8L2R5W7 (UniProtKB/TrEMBL)
- Sequence:	show sequence MRVCWLVRQDCWHQRIKLPHLEAVVIGRSPETKITDKKCSRQQVQLKAECNKRYVNVKQMGVNP TSIDEVVIGKDREMKLLPGQVLHMVNELYPYMVEFEEVAESPNVTQRKRKRPDCDSQEMEAEAG ASPSQCSVSPKTGKHGAAKEESLGHWSQGLKISMKDPKMQVYKDDQVVVIKDKYPKARHHWLVL PWASISSLKVVTSEHLELLKHMHAVGEKVIADFTGSSKLRFRLGYHAIPSMSHVHLHVISQDFD SPCLKNKKHWNSFNTEYFLESQAVIKMVQEAGRVTVKDGTCELLKLPLRCHECQQLLPSIPQLK EHLRKHWGG hide sequence

RefSeq Acc Id:	XP_006238089 ⟸ XM_006238027
- Peptide Label:	isoform X2
- UniProtKB:	Q8K4H4 (UniProtKB/Swiss-Prot), A6IIS0 (UniProtKB/TrEMBL), A0A8L2R5W7 (UniProtKB/TrEMBL)
- Sequence:	show sequence MRVCWLVRQDCWHQRIKLPHLEAVVIGRSPETKITDKKCSRQQVQLKAECNKRYVNVKQMGVNP TSIDEVVIGKDREMKLLPGQVLHMVNELYPYMVEFEEVAESPNVTQRKRKRPDCDSQEMEAEAG ASPSQCSVSPKTGKHGAAKEESLGHWSQGLKISMKDPKMQVYKDDQVVVIKDKYPKARHHWLVL PWASISSLKVVTSEHLELLKHMHAVGEKVIADFTGSSKLRFRLGYHAIPSMSHVHLHVISQDFD SPCLKNKKHWNSFNTEYFLESQAVIKMVQEAGRVTVKDGTCELLKLPLRCHECQQLLPSIPQLK EHLRKHWGG hide sequence

RefSeq Acc Id:	XP_006238091 ⟸ XM_006238029
- Peptide Label:	isoform X3
- UniProtKB:	A0A8L2R5W7 (UniProtKB/TrEMBL)
- Sequence:	show sequence MGVNPTSIDEVVIGKDREMKLLPGQVLHMVNELYPYMVEFEEVAESPNVTQRKRKRPDCDSQEM EAEAGASPSQCSVSPKTGKHGAAKEESLGHWSQGLKISMKDPKMQVYKDDQVVVIKDKYPKARH HWLVLPWASISSLKVVTSEHLELLKHMHAVGEKVIADFTGSSKLRFRLGYHAIPSMSHVHLHVI SQDFDSPCLKNKKHWNSFNTEYFLESQAVIKMVQEAGRVTVKDGTCELLKLPLRCHECQQLLPS IPQLKEHLRKHWGG hide sequence

RefSeq Acc Id:	XP_008761829 ⟸ XM_008763607
- Peptide Label:	isoform X3
- UniProtKB:	A0A8L2R5W7 (UniProtKB/TrEMBL)
- Sequence:	show sequence MGVNPTSIDEVVIGKDREMKLLPGQVLHMVNELYPYMVEFEEVAESPNVTQRKRKRPDCDSQEM EAEAGASPSQCSVSPKTGKHGAAKEESLGHWSQGLKISMKDPKMQVYKDDQVVVIKDKYPKARH HWLVLPWASISSLKVVTSEHLELLKHMHAVGEKVIADFTGSSKLRFRLGYHAIPSMSHVHLHVI SQDFDSPCLKNKKHWNSFNTEYFLESQAVIKMVQEAGRVTVKDGTCELLKLPLRCHECQQLLPS IPQLKEHLRKHWGG hide sequence

RefSeq Acc Id:	XP_017448660 ⟸ XM_017593171
- Peptide Label:	isoform X1
- UniProtKB:	A0A8I6GL70 (UniProtKB/TrEMBL), A0A8L2R5W7 (UniProtKB/TrEMBL)
- Sequence:	show sequence MLLGQEARYPPRAKMRVCWLVRQDCWHQRIKLPHLEAVVIGRSPETKITDKKCSRQQVQLKAEC NKRYVNVKQMGVNPTSIDEVVIGKDREMKLLPGQVLHMVNELYPYMVEFEEVAESPNVTQRKRK RPDCDSQEMEAEAGASPSQCSVSPKTGKHGAAKEESLGHWSQGLKISMKDPKMQVYKDDQVVVI KDKYPKARHHWLVLPWASISSLKVVTSEHLELLKHMHAVGEKVIADFTGSSKLRFRLGYHAIPS MSHVHLHVISQDFDSPCLKNKKHWNSFNTEYFLESQAVIKMVQEAGRVTVKDGTCELLKLPLRC HECQQLLPSIPQLKEHLRKHWGG hide sequence

RefSeq Acc Id:

ENSRNOP00000072443 ⟸ ENSRNOT00000090891

RefSeq Acc Id:

ENSRNOP00000046400 ⟸ ENSRNOT00000046463

RefSeq Acc Id:	XP_038965255 ⟸ XM_039109327
- Peptide Label:	isoform X3
- UniProtKB:	A0A8L2R5W7 (UniProtKB/TrEMBL)

RefSeq Acc Id:	XP_038965256 ⟸ XM_039109328
- Peptide Label:	isoform X4
- UniProtKB:	A0A8I6AKE7 (UniProtKB/TrEMBL)

RefSeq Acc Id:

ENSRNOP00000094475 ⟸ ENSRNOT00000115715

RefSeq Acc Id:

ENSRNOP00000094856 ⟸ ENSRNOT00000094147

Protein Domains

C2H2-type FHA-like HIT

Protein Structures

Name	Modeler	Protein Id	AA Range	Protein Structure
AF-Q8K4H4-F1-model_v2	AlphaFold	Q8K4H4	1-329	view protein structure

Transcriptome

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

Additional Information

External Database Links

Database	Acc Id	Source(s)
AGR Gene	RGD:628740	AgrOrtholog
BioCyc Gene	G2FUF-41591	BioCyc
Ensembl Genes	ENSRNOG00000006582	Ensembl, ENTREZGENE, UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Ensembl Protein	ENSRNOP00000046400	ENTREZGENE, UniProtKB/Swiss-Prot
	ENSRNOP00000072443	ENTREZGENE
	ENSRNOP00000072443.2	UniProtKB/TrEMBL
	ENSRNOP00000094475	ENTREZGENE
	ENSRNOP00000094475.1	UniProtKB/TrEMBL
	ENSRNOP00000094856	ENTREZGENE
	ENSRNOP00000094856.1	UniProtKB/TrEMBL
Ensembl Transcript	ENSRNOT00000046463	ENTREZGENE, UniProtKB/Swiss-Prot
	ENSRNOT00000090891	ENTREZGENE
	ENSRNOT00000090891.2	UniProtKB/TrEMBL
	ENSRNOT00000094147	ENTREZGENE
	ENSRNOT00000094147.1	UniProtKB/TrEMBL
	ENSRNOT00000115715	ENTREZGENE
	ENSRNOT00000115715.1	UniProtKB/TrEMBL
Gene3D-CATH	2.60.200.20	UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
	3.30.428.10	UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
IMAGE_CLONE	IMAGE:7132044	IMAGE-MGC_LOAD
InterPro	FHA_2	UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
	Histidine_triad_CS	UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
	HIT-like	UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
	HIT-like_sf	UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
	SMAD_FHA_dom_sf	UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
	Znf-C2HE	UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
	Znf_C2H2_type	UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
KEGG Report	rno:259271	UniProtKB/Swiss-Prot
MGC_CLONE	MGC:93138	IMAGE-MGC_LOAD
NCBI Gene	259271	ENTREZGENE
PANTHER	APRATAXIN-RELATED	UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
	PTHR12486:SF4	UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Pfam	DcpS_C	UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
	FHA_2	UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
	zf-C2HE	UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PhenoGen	Aptx	PhenoGen
PROSITE	HIT_1	UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
	HIT_2	UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
	ZINC_FINGER_C2H2_1	UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
	ZINC_FINGER_C2H2_2	UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Superfamily-SCOP	SSF49879	UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
	SSF54197	UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
UniProt	A0A8I6AKE7	ENTREZGENE, UniProtKB/TrEMBL
	A0A8I6GL70	ENTREZGENE, UniProtKB/TrEMBL
	A0A8L2R5W7	ENTREZGENE, UniProtKB/TrEMBL
	A6IIS0	ENTREZGENE, UniProtKB/TrEMBL
	APTX_RAT	UniProtKB/Swiss-Prot, ENTREZGENE

Nomenclature History

Date	Current Symbol	Current Name	Previous Symbol	Previous Name	Description	Reference	Status
2004-09-10	Aptx	aprataxin			Symbol and Name status set to approved	1299863	APPROVED
2003-02-27	Aptx	aprataxin			Symbol and Name status set to provisional	70820	PROVISIONAL

RGD Curation Notes

Note Type	Note	Reference
gene_disease	mutations in the human homolog have been identified in patients with an early-onset ataxia with ocular motor apraxia and hypoalbuminemia	634558

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 - CTD

Imported Disease Annotations - OMIM

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