Pbx1 (PBX homeobox 1) - Rat Genome Database

Name: Pbx1
Creator: Rat Genome Database
License: Creative Commons CC BY 4.0
Keywords: Rat Gene RGD Genome

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Gene: Pbx1 (PBX homeobox 1) Rattus norvegicus

Analyze

Symbol:

Pbx1

Name:

PBX homeobox 1

RGD ID:

1308213

Description:

Predicted to enable several functions, including DNA-binding transcription activator activity, RNA polymerase II-specific; RNA polymerase II cis-regulatory region sequence-specific DNA binding activity; and transcription corepressor binding activity. Predicted to contribute to RNA polymerase II transcription regulatory region sequence-specific DNA binding activity. Predicted to be involved in several processes, including natural killer cell differentiation; nervous system development; and regulation of DNA-templated transcription. Predicted to act upstream of or within several processes, including hematopoietic or lymphoid organ development; positive regulation of G2/M transition of mitotic cell cycle; and regionalization. Predicted to be located in cytoplasm and nucleoplasm. Predicted to be part of RNA polymerase II transcription regulator complex. Human ortholog(s) of this gene implicated in B-lymphoblastic leukemia/lymphoma and congenital anomalies of kidney and urinary tract syndrome with or without hearing loss, abnormal ears, or developmental delay. Orthologous to human PBX1 (PBX homeobox 1); INTERACTS WITH (+)-schisandrin B; 17alpha-ethynylestradiol; 17beta-estradiol.

Type:

protein-coding

RefSeq Status:

VALIDATED

Previously known as:

LOC304947; pre-B-cell leukemia homeobox 1; pre-B-cell leukemia transcription factor 1

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):	PBX1 (PBX homeobox 1)	HGNC	EggNOG, Ensembl, HomoloGene, Inparanoid, NCBI, OMA, OrthoMCL, Panther, Treefam
Mus musculus (house mouse):	Pbx1 (pre B cell leukemia homeobox 1)	HGNC	Treefam, EggNOG, OrthoMCL, NCBI, OMA, HomoloGene, Inparanoid, Panther, Ensembl
Chinchilla lanigera (long-tailed chinchilla):	Pbx1 (PBX homeobox 1)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Pan paniscus (bonobo/pygmy chimpanzee):	PBX1 (PBX homeobox 1)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Canis lupus familiaris (dog):	PBX1 (PBX homeobox 1)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Ictidomys tridecemlineatus (thirteen-lined ground squirrel):	Pbx1 (PBX homeobox 1)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Sus scrofa (pig):	PBX1 (PBX homeobox 1)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Chlorocebus sabaeus (green monkey):	PBX1 (PBX homeobox 1)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Heterocephalus glaber (naked mole-rat):	Pbx1 (PBX homeobox 1)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Other homologs ²
Homo sapiens (human):	PBX3 (PBX homeobox 3)	HGNC	OrthoDB
Alliance orthologs ³
Homo sapiens (human):	PBX1 (PBX homeobox 1)	Alliance	DIOPT (Ensembl Compara\|HGNC\|OMA\|OrthoFinder\|OrthoInspector\|PANTHER\|PhylomeDB)
Mus musculus (house mouse):	Pbx1 (pre B cell leukemia homeobox 1)	Alliance	DIOPT (Ensembl Compara\|OMA\|OrthoFinder\|OrthoInspector\|PANTHER\|PhylomeDB)
Danio rerio (zebrafish):	pbx1a (pre-B-cell leukemia homeobox 1a)	Alliance	DIOPT (OMA\|OrthoFinder\|PANTHER\|PhylomeDB)
Drosophila melanogaster (fruit fly):	exd	Alliance	DIOPT (Ensembl Compara\|Hieranoid\|InParanoid\|OrthoFinder\|OrthoInspector\|PANTHER\|SonicParanoid)
Caenorhabditis elegans (roundworm):	ceh-20	Alliance	DIOPT (Ensembl Compara\|Hieranoid\|InParanoid\|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	13	80,278,766 - 80,588,563 (-)	NCBI	mRatBN7.2
mRatBN7.2 Ensembl	13	80,278,770 - 80,588,594 (-)	Ensembl
Rnor_6.0	13	86,390,741 - 86,671,460 (-)	NCBI	Rnor6.0	Rnor_6.0	rn6	Rnor6.0
Rnor_6.0 Ensembl	13	86,390,741 - 86,451,002 (-)	Ensembl	Rnor6.0		rn6	Rnor6.0
Rnor_5.0	13	91,028,026 - 91,307,274 (-)	NCBI	Rnor5.0	Rnor_5.0	rn5	Rnor5.0
RGSC_v3.4	13	83,839,256 - 84,115,516 (-)	NCBI	RGSC3.4		rn4	RGSC3.4
RGSC_v3.1	13	83,853,894 - 84,129,704 (-)	NCBI
Celera	13	80,014,082 - 80,284,838 (-)	NCBI		Celera
Cytogenetic Map	13	q24	NCBI

JBrowse:

View Region in Genome Browser (JBrowse)

Model

Annotation Click to see Annotation Detail View

Disease Annotations Click to see Annotation Detail View

B-lymphoblastic leukemia/lymphoma (ISO)

Burkitt lymphoma (ISO)

congenital anomalies of kidney and urinary tract syndrome with or without hearing loss, abnormal ears, or developmental delay (ISO)

gastrointestinal stromal tumor (ISO)

genetic disease (ISO)

parathyroid carcinoma (ISO)

substance-related disorder (ISO)

Gene-Chemical Interaction Annotations Click to see Annotation Detail View

(+)-schisandrin B (EXP)

1,2-dimethylhydrazine (ISO)

17alpha-ethynylestradiol (EXP)

17beta-estradiol (EXP,ISO)

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

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

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

4,4'-sulfonyldiphenol (ISO)

4-hydroxyphenyl retinamide (ISO)

5-aza-2'-deoxycytidine (ISO)

acetaldehyde (ISO)

acetamide (EXP)

acrylamide (EXP)

aflatoxin B1 (EXP,ISO)

Aflatoxin B2 alpha (ISO)

all-trans-retinoic acid (EXP,ISO)

antimonite (ISO)

antirheumatic drug (ISO)

Aroclor 1254 (ISO)

atrazine (ISO)

benzo[a]pyrene (ISO)

benzo[a]pyrene diol epoxide I (ISO)

benzo[b]fluoranthene (ISO)

bis(2-chloroethyl) sulfide (ISO)

bisphenol A (EXP,ISO)

butanal (ISO)

calciol (ISO)

calcitriol (ISO)

carbon nanotube (ISO)

chrysene (ISO)

cisplatin (EXP,ISO)

cobalt dichloride (EXP,ISO)

cocaine (EXP)

copper atom (ISO)

copper(0) (ISO)

coumestrol (ISO)

crocidolite asbestos (ISO)

cyclosporin A (ISO)

cyproconazole (ISO)

dipotassium bis[mu-tartrato(4-)]diantimonate(2-) trihydrate (ISO)

dorsomorphin (ISO)

doxorubicin (ISO)

enzyme inhibitor (ISO)

ethyl methanesulfonate (ISO)

flusilazole (ISO)

folic acid (ISO)

fulvestrant (ISO)

gentamycin (EXP)

geraniol (ISO)

hydrogen peroxide (ISO)

hydroquinone (ISO)

Indeno[1,2,3-cd]pyrene (ISO)

methyl methanesulfonate (ISO)

methylmercury chloride (ISO)

methylseleninic acid (ISO)

mitoxantrone (ISO)

nickel atom (ISO)

nickel sulfate (ISO)

paracetamol (EXP,ISO)

PCB138 (ISO)

phenobarbital (ISO)

phenylmercury acetate (ISO)

phenytoin (EXP)

pirinixic acid (ISO)

piroxicam (ISO)

progesterone (ISO)

propiconazole (ISO)

resveratrol (ISO)

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

SB 431542 (ISO)

silicon dioxide (ISO)

sodium arsenate (ISO)

sodium arsenite (ISO)

sulforaphane (ISO)

sunitinib (ISO)

tert-butyl hydroperoxide (ISO)

testosterone (ISO)

tetrachloromethane (EXP)

tetraphene (ISO)

thioacetamide (EXP)

trimellitic anhydride (ISO)

valproic acid (EXP,ISO)

Gene Ontology Annotations Click to see Annotation Detail View

Biological Process

adrenal gland development (ISO)

animal organ morphogenesis (IBA,ISO)

anterior/posterior pattern specification (ISO)

biological_process (ND)

brain development (IBA)

branching involved in ureteric bud morphogenesis (ISO)

cell population proliferation (ISO)

embryonic hemopoiesis (ISO)

embryonic limb morphogenesis (ISO)

embryonic organ development (IBA,ISO)

embryonic skeletal system development (ISO)

eye development (IBA)

G2/M transition of mitotic cell cycle (ISO)

natural killer cell differentiation (ISO)

negative regulation of DNA-binding transcription factor activity (ISO)

negative regulation of neuron differentiation (ISO)

neuron development (IBA)

positive regulation of cell population proliferation (ISO)

positive regulation of G2/M transition of mitotic cell cycle (ISO)

positive regulation of stem cell proliferation (ISO)

positive regulation of transcription by RNA polymerase II (ISO)

proximal/distal pattern formation (ISO)

regulation of cell population proliferation (ISO)

regulation of ossification (ISO)

regulation of transcription by RNA polymerase II (IBA)

spleen development (ISO)

stem cell proliferation (ISO)

thymus development (ISO)

urogenital system development (ISO)

Cellular Component

cellular_component (ND)

cytoplasm (ISO)

nucleoplasm (ISO)

nucleus (ISO)

RNA polymerase II transcription regulator complex (ISO)

transcription regulator complex (ISO)

Molecular Function

DNA binding (ISO)

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

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

DNA-binding transcription factor binding (ISO)

molecular_function (ND)

protein binding (ISO)

RNA polymerase II cis-regulatory region sequence-specific DNA binding (IBA,ISO)

RNA polymerase II transcription regulatory region sequence-specific DNA binding (ISO)

sequence-specific DNA binding (ISO)

sequence-specific double-stranded DNA binding (ISO)

transcription cis-regulatory region binding (ISO)

transcription coregulator binding (ISO)

transcription corepressor binding (ISO)

References

References - curated

#	Reference Title	Reference Citation
1.	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.
2.	Rat ISS GO annotations from GOA human gene data--August 2006	GOA data from the GO Consortium
3.	Rat ISS GO annotations from MGI mouse gene data--August 2006	MGD data from the GO Consortium
4.	OMIM Disease Annotation Pipeline	OMIM Disease Annotation Pipeline
5.	GOA pipeline	RGD automated data pipeline
6.	ClinVar Automated Import and Annotation Pipeline	RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
7.	Data Import for Chemical-Gene Interactions	RGD automated import pipeline for gene-chemical interactions
8.	Comprehensive gene review and curation	RGD comprehensive gene curation

Additional References at PubMed

PMID:9079637	PMID:9315626	PMID:9405651	PMID:10052460	PMID:10381567	PMID:10842069	PMID:11010815	PMID:11468159	PMID:11566859	PMID:11912494	PMID:12412021	PMID:12477932
PMID:12591246	PMID:12724421	PMID:14595835	PMID:14764653	PMID:15087118	PMID:15581866	PMID:15634706	PMID:15684392	PMID:15944191	PMID:16672333	PMID:16847320	PMID:17049510
PMID:18164701	PMID:18787068	PMID:18973687	PMID:19799567	PMID:22560297	PMID:28270404

Genomics

Comparative Map Data

Pbx1
(Rattus norvegicus - Norway rat)

Rat Assembly	Chr	Position (strand)	Source	Genome Browsers
Rat Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
mRatBN7.2	13	80,278,766 - 80,588,563 (-)	NCBI	mRatBN7.2
mRatBN7.2 Ensembl	13	80,278,770 - 80,588,594 (-)	Ensembl
Rnor_6.0	13	86,390,741 - 86,671,460 (-)	NCBI	Rnor6.0	Rnor_6.0	rn6	Rnor6.0
Rnor_6.0 Ensembl	13	86,390,741 - 86,451,002 (-)	Ensembl	Rnor6.0		rn6	Rnor6.0
Rnor_5.0	13	91,028,026 - 91,307,274 (-)	NCBI	Rnor5.0	Rnor_5.0	rn5	Rnor5.0
RGSC_v3.4	13	83,839,256 - 84,115,516 (-)	NCBI	RGSC3.4		rn4	RGSC3.4
RGSC_v3.1	13	83,853,894 - 84,129,704 (-)	NCBI
Celera	13	80,014,082 - 80,284,838 (-)	NCBI		Celera
Cytogenetic Map	13	q24	NCBI

PBX1
(Homo sapiens - human)

Human Assembly	Chr	Position (strand)	Source	Genome Browsers
Human Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCh38	1	164,559,184 - 164,886,047 (+)	NCBI	GRCh38	GRCh38	hg38	GRCh38
GRCh38.p13 Ensembl	1	164,555,584 - 164,899,296 (+)	Ensembl	GRCh38		hg38	GRCh38
GRCh37	1	164,528,421 - 164,855,284 (+)	NCBI	GRCh37	GRCh37	hg19	GRCh37
Build 36	1	162,795,561 - 163,082,934 (+)	NCBI	NCBI36		hg18	NCBI36
Build 34	1	161,260,594 - 161,547,967	NCBI
Celera	1	137,634,090 - 137,926,324 (+)	NCBI
Cytogenetic Map	1	q23.3	NCBI
HuRef	1	135,774,690 - 136,068,016 (+)	NCBI		HuRef
CHM1_1	1	165,951,428 - 166,243,870 (+)	NCBI		CHM1_1
T2T-CHM13v2.0	1	163,905,448 - 164,232,389 (+)	NCBI

Pbx1
(Mus musculus - house mouse)

Mouse Assembly	Chr	Position (strand)	Source	Genome Browsers
Mouse Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCm39	1	167,946,933 - 168,259,898 (-)	NCBI	GRCm39		mm39
GRCm39 Ensembl	1	167,946,933 - 168,259,839 (-)	Ensembl
GRCm38	1	168,119,364 - 168,432,365 (-)	NCBI	GRCm38	GRCm38	mm10	GRCm38
GRCm38.p6 Ensembl	1	168,119,364 - 168,432,270 (-)	Ensembl	GRCm38		mm10	GRCm38
MGSCv37	1	170,049,495 - 170,362,389 (-)	NCBI	GRCm37		mm9	NCBIm37
MGSCv36	1	169,956,674 - 170,268,631 (-)	NCBI			mm8
MGSCv36	1	169,328,392 - 169,641,347 (-)	NCBI			mm8
Celera	1	170,542,293 - 170,864,365 (-)	NCBI		Celera
Cytogenetic Map	1	H2.3	NCBI
cM Map	1	75.95	NCBI

Pbx1
(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_004955462	11,812,649 - 12,082,316 (-)	Ensembl	ChiLan1.0
ChiLan1.0	NW_004955462	11,777,168 - 12,083,068 (-)	NCBI	ChiLan1.0	ChiLan1.0

PBX1
(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	1	143,778,426 - 144,104,493 (+)	NCBI	panpan1.1	PanPan1.1	panPan2
PanPan1.1 Ensembl	1	143,778,701 - 144,104,797 (+)	Ensembl	panpan1.1		panPan2
Mhudiblu_PPA_v0	1	139,985,392 - 140,311,845 (+)	NCBI	Mhudiblu_PPA_v0		panPan3

PBX1
(Canis lupus familiaris - dog)

Dog Assembly	Chr	Position (strand)	Source	Genome Browsers
Dog Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
CanFam3.1	38	18,378,997 - 18,703,694 (-)	NCBI	CanFam3.1	CanFam3.1	canFam3	CanFam3.1
CanFam3.1 Ensembl	38	18,418,093 - 18,703,497 (-)	Ensembl	CanFam3.1		canFam3	CanFam3.1
Dog10K_Boxer_Tasha	38	18,435,288 - 18,759,350 (-)	NCBI
ROS_Cfam_1.0	38	18,460,019 - 18,784,434 (-)	NCBI
ROS_Cfam_1.0 Ensembl	38	18,458,914 - 18,783,979 (-)	Ensembl
UMICH_Zoey_3.1	38	18,431,748 - 18,755,044 (-)	NCBI
UNSW_CanFamBas_1.0	38	18,781,894 - 19,105,974 (-)	NCBI
UU_Cfam_GSD_1.0	38	19,078,211 - 19,402,654 (-)	NCBI

Pbx1
(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_024409344	102,354,727 - 102,593,874 (-)	NCBI
SpeTri2.0	NW_004936481	20,200,236 - 20,440,623 (-)	NCBI	SpeTri2.0	SpeTri2.0		SpeTri2.0

PBX1
(Sus scrofa - pig)

Pig Assembly	Chr	Position (strand)	Source	Genome Browsers
Pig Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
Sscrofa11.1 Ensembl	4	85,824,666 - 86,170,191 (-)	Ensembl	Sscrofa11.1		susScr11	Sscrofa11.1
Sscrofa11.1	4	85,824,590 - 86,170,328 (-)	NCBI	Sscrofa11.1	Sscrofa11.1	susScr11	Sscrofa11.1
Sscrofa10.2	4	93,531,066 - 93,876,673 (-)	NCBI	Sscrofa10.2	Sscrofa10.2	susScr3

PBX1
(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	25	63,990,553 - 64,317,901 (-)	NCBI	ChlSab1.1		chlSab2
ChlSab1.1 Ensembl	25	63,989,612 - 64,084,673 (-)	Ensembl	ChlSab1.1		chlSab2
Vero_WHO_p1.0	NW_023666055	65,810,334 - 66,103,813 (-)	NCBI	Vero_WHO_p1.0

Pbx1
(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_004624826	2,945,004 - 3,215,110 (+)	Ensembl	HetGla_female_1.0		hetGla2
HetGla 1.0	NW_004624826	2,944,272 - 3,250,957 (+)	NCBI	HetGla_female_1.0		hetGla2

Position Markers

RH142689

Rat Assembly	Chr	Position (strand)	Source	JBrowse
mRatBN7.2	13	80,570,212 - 80,570,438 (+)	MAPPER	mRatBN7.2
Rnor_6.0	13	86,653,901 - 86,654,126	NCBI	Rnor6.0
Rnor_5.0	13	91,289,715 - 91,289,940	UniSTS	Rnor5.0
RGSC_v3.4	13	84,097,528 - 84,097,753	UniSTS	RGSC3.4
Celera	13	80,266,859 - 80,267,084	UniSTS
RH 3.4 Map	13	527.2	UniSTS
Cytogenetic Map	13	q24	UniSTS

BE097482

Rat Assembly	Chr	Position (strand)	Source	JBrowse
mRatBN7.2	13	80,575,939 - 80,576,098 (+)	MAPPER	mRatBN7.2
Rnor_6.0	13	86,659,232 - 86,659,390	NCBI	Rnor6.0
Rnor_5.0	13	91,295,046 - 91,295,204	UniSTS	Rnor5.0
RGSC_v3.4	13	84,103,255 - 84,103,413	UniSTS	RGSC3.4
Celera	13	80,272,579 - 80,272,737	UniSTS
RH 3.4 Map	13	535.9	UniSTS
Cytogenetic Map	13	q24	UniSTS

BI281745

Rat Assembly	Chr	Position (strand)	Source	JBrowse
mRatBN7.2	13	80,576,077 - 80,576,241 (+)	MAPPER	mRatBN7.2
Rnor_6.0	13	86,659,370 - 86,659,533	NCBI	Rnor6.0
Rnor_5.0	13	91,295,184 - 91,295,347	UniSTS	Rnor5.0
RGSC_v3.4	13	84,103,393 - 84,103,556	UniSTS	RGSC3.4
Celera	13	80,272,717 - 80,272,880	UniSTS
RH 3.4 Map	13	526.3	UniSTS
Cytogenetic Map	13	q24	UniSTS

AW535487

Rat Assembly	Chr	Position (strand)	Source	JBrowse
mRatBN7.2	13	80,587,363 - 80,587,516 (+)	MAPPER	mRatBN7.2
Rnor_6.0	13	86,670,656 - 86,670,808	NCBI	Rnor6.0
Rnor_5.0	13	91,306,470 - 91,306,622	UniSTS	Rnor5.0
RGSC_v3.4	13	84,114,679 - 84,114,831	UniSTS	RGSC3.4
Celera	13	80,284,006 - 80,284,158	UniSTS
RH 3.4 Map	13	524.6	UniSTS
Cytogenetic Map	13	q24	UniSTS

AL033591

Rat Assembly	Chr	Position (strand)	Source	JBrowse
mRatBN7.2	13	80,509,545 - 80,509,629 (+)	MAPPER	mRatBN7.2
Rnor_6.0	13	86,592,140 - 86,592,223	NCBI	Rnor6.0
Rnor_5.0	13	91,228,297 - 91,228,380	UniSTS	Rnor5.0
RGSC_v3.4	13	84,036,334 - 84,036,417	UniSTS	RGSC3.4
Celera	13	80,206,226 - 80,206,309	UniSTS
Cytogenetic Map	13	q24	UniSTS

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
1354666	Bp244	Blood pressure QTL 244	4.9		arterial blood pressure trait (VT:2000000)	diastolic blood pressure (CMO:0000005)	13	1	101056920	Rat
1354666	Bp244	Blood pressure QTL 244	4.9		arterial blood pressure trait (VT:2000000)	mean arterial blood pressure (CMO:0000009)	13	1	101056920	Rat
1354666	Bp244	Blood pressure QTL 244	4.9		arterial blood pressure trait (VT:2000000)	systolic blood pressure (CMO:0000004)	13	1	101056920	Rat
1581570	Eae17	Experimental allergic encephalomyelitis QTL 17	4.1		nervous system integrity trait (VT:0010566)	experimental autoimmune encephalomyelitis incidence/prevalence measurement (CMO:0001046)	13	8897350	101631289	Rat
7207885	Glom27	Glomerulus QTL 27	3.9		kidney glomerulus integrity trait (VT:0010546)	kidney crescentic glomeruli count to kidney normal glomeruli count ratio (CMO:0002139)	13	20605871	101339738	Rat
1354621	Rf47	Renal function QTL 47	3.7		kidney renin amount (VT:0010559)	kidney renin level (CMO:0002166)	13	30395351	101056920	Rat
70181	BpQTLcluster11	Blood pressure QTL cluster 11	6.922		arterial blood pressure trait (VT:2000000)	diastolic blood pressure (CMO:0000005)	13	31241331	93395974	Rat
70181	BpQTLcluster11	Blood pressure QTL cluster 11	6.922		arterial blood pressure trait (VT:2000000)	systolic blood pressure (CMO:0000004)	13	31241331	93395974	Rat
70181	BpQTLcluster11	Blood pressure QTL cluster 11	6.922		arterial blood pressure trait (VT:2000000)	mean arterial blood pressure (CMO:0000009)	13	31241331	93395974	Rat
70181	BpQTLcluster11	Blood pressure QTL cluster 11	6.922		arterial blood pressure trait (VT:2000000)	absolute change in mean arterial blood pressure (CMO:0000533)	13	31241331	93395974	Rat
12879477	Bp401	Blood pressure QTL 401			arterial blood pressure trait (VT:2000000)	mean arterial blood pressure (CMO:0000009)	13	37262092	82262092	Rat
61349	Bp31	Blood pressure QTL 31	5.75		arterial blood pressure trait (VT:2000000)	blood pressure measurement (CMO:0000003)	13	37374509	82374509	Rat
70220	Bp55	Blood pressure QTL 55	5.75		arterial blood pressure trait (VT:2000000)	blood pressure measurement (CMO:0000003)	13	37374509	82374509	Rat
4889861	Pur29	Proteinuria QTL 29	13.8	0.005	total urine protein amount (VT:0000032)	urine total protein excretion rate (CMO:0000756)	13	37415584	80753406	Rat
1331750	Bp220	Blood pressure QTL 220	2.98		arterial blood pressure trait (VT:2000000)	diastolic blood pressure (CMO:0000005)	13	37415584	82415584	Rat
1549897	Stresp12	Stress response QTL 12	3.35		stress-related behavior trait (VT:0010451)	number of approaches toward negative stimulus before onset of defensive burying response (CMO:0001960)	13	38433408	83433408	Rat
619615	Bp80	Blood pressure QTL 80		0.0354	arterial blood pressure trait (VT:2000000)	systolic blood pressure (CMO:0000004)	13	39754544	84754544	Rat
12879444	Bp397	Blood pressure QTL 397			arterial blood pressure trait (VT:2000000)	mean arterial blood pressure (CMO:0000009)	13	45049404	90049404	Rat
12879471	Bp398	Blood pressure QTL 398			arterial blood pressure trait (VT:2000000)	mean arterial blood pressure (CMO:0000009)	13	45514719	90514719	Rat
12879441	Bp396	Blood pressure QTL 396			arterial blood pressure trait (VT:2000000)	mean arterial blood pressure (CMO:0000009)	13	45699983	90699983	Rat
1298066	Bp159	Blood pressure QTL 159		0.004	arterial blood pressure trait (VT:2000000)	systolic blood pressure (CMO:0000004)	13	46088046	91088046	Rat
71119	Thym2	Thymus enlargement QTL 2	3.8		thymus mass (VT:0004954)	thymus weight to body weight ratio (CMO:0000612)	13	46197976	84753113	Rat
1641901	Alcrsp6	Alcohol response QTL 6			response to alcohol trait (VT:0010489)	duration of loss of righting reflex (CMO:0002289)	13	52362171	97362171	Rat
1354655	Bp241	Blood pressure QTL 241	3.9		arterial blood pressure trait (VT:2000000)	systolic blood pressure (CMO:0000004)	13	56056920	101056920	Rat
738026	Lnnr5	Liver neoplastic nodule remodeling QTL 5	3.29		liver integrity trait (VT:0010547)	liver remodeling tumorous lesion number (CMO:0001461)	13	59874408	85581182	Rat
12879475	Bp400	Blood pressure QTL 400			arterial blood pressure trait (VT:2000000)	mean arterial blood pressure (CMO:0000009)	13	61825626	106807694	Rat
2293702	Bss34	Bone structure and strength QTL 34	4.61	0.0001	femur strength trait (VT:0010010)	femur midshaft polar moment of inertia (CMO:0001669)	13	65103704	106807694	Rat
2293687	Bss26	Bone structure and strength QTL 26	4.6	0.0001	femur morphology trait (VT:0000559)	femur cross-sectional area (CMO:0001661)	13	65103704	106807694	Rat
8655945	Rf61	Renal function QTL 61	3.6		blood creatinine amount (VT:0005328)	creatinine clearance (CMO:0000765)	13	69060519	86800898	Rat
1331783	Bp221	Blood pressure QTL 221	3.72886		arterial blood pressure trait (VT:2000000)	mean arterial blood pressure (CMO:0000009)	13	69060519	86800898	Rat
1300166	Kidm6	Kidney mass QTL 6	3.93		kidney mass (VT:0002707)	single kidney wet weight to body weight ratio (CMO:0000622)	13	69060519	86800898	Rat
11530006	Niddm72	Non-insulin dependent diabetes mellitus QTL 72		0.001	blood glucose amount (VT:0000188)	blood glucose level area under curve (AUC) (CMO:0000350)	13	74023918	80753406	Rat
8655959	Pur32	Proteinuria QTL 32	8.4		total urine protein amount (VT:0000032)	urine total protein excretion rate (CMO:0000756)	13	74023918	97213863	Rat
738027	Lnnr6	Liver neoplastic nodule remodeling QTL 6	3.3		liver integrity trait (VT:0010547)	liver remodeling tumorous lesion number (CMO:0001461)	13	74862117	85581182	Rat
2293341	Glom15	Glomerulus QTL 15	9.1		kidney glomerulus integrity trait (VT:0010546)	kidney sclerotic glomeruli count to total glomeruli count ratio (CMO:0001269)	13	74862117	101339893	Rat

miRNA Target Status

Predicted Target Of

	Summary Value
Count of predictions:	188
Count of miRNA genes:	139
Interacting mature miRNAs:	150
Transcripts:	ENSRNOT00000027996, ENSRNOT00000043004
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	2	39	24	14	4	14	2	2	74	35	34	11	2
Low	1	4	33	27	15	27	6	9			7		6
Below cutoff

View RNA-SEQ Expression Data

Sequence

Nucleotide Sequences


RefSeq Transcripts	NM_001100681	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	NM_001134862	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	XM_039090792	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	XM_039090794	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
GenBank Nucleotide	BC098847	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	BC161983	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	CH473958	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	FN805837	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	JACYVU010000244	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles

Reference Sequences

RefSeq Acc Id:

ENSRNOT00000027996 ⟹ ENSRNOP00000027996

RefSeq Status:

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
mRatBN7.2 Ensembl	13	80,278,770 - 80,588,594 (-)	Ensembl
Rnor_6.0 Ensembl	13	86,391,517 - 86,451,002 (-)	Ensembl

RefSeq Acc Id:

ENSRNOT00000043004 ⟹ ENSRNOP00000039416

RefSeq Status:

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
Rnor_6.0 Ensembl	13	86,390,741 - 86,451,002 (-)	Ensembl

RefSeq Acc Id:

ENSRNOT00000103202 ⟹ ENSRNOP00000080916

RefSeq Status:

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
mRatBN7.2 Ensembl	13	80,312,058 - 80,588,594 (-)	Ensembl

RefSeq Acc Id:

ENSRNOT00000106300 ⟹ ENSRNOP00000096551

RefSeq Status:

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
mRatBN7.2 Ensembl	13	80,312,064 - 80,588,594 (-)	Ensembl

RefSeq Acc Id:

ENSRNOT00000107293 ⟹ ENSRNOP00000093157

RefSeq Status:

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
mRatBN7.2 Ensembl	13	80,312,058 - 80,588,594 (-)	Ensembl

RefSeq Acc Id:

NM_001100681 ⟹ NP_001094151

RefSeq Status:

VALIDATED

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
mRatBN7.2	13	80,312,054 - 80,588,166 (-)	NCBI
Rnor_6.0	13	86,391,516 - 86,671,323 (-)	NCBI
Rnor_5.0	13	91,028,026 - 91,307,274 (-)	NCBI
RGSC_v3.4	13	83,839,256 - 84,115,516 (-)	RGD
Celera	13	80,014,857 - 80,284,668 (-)	NCBI

Sequence:

show sequence

CCCCACCCTCACCCCGCAACCCCTTCACGCCCCCTCCCCCTCCCCATCCTCCCACCATCCTCTA
AAGAGGCAAAGAGATTTTTTTTTTCCCTTTTGGTCTTCTTCTTCTTCTTCTTCTTCTTTTTTTT
TTTAAACCCTGGTCCCTGTTTATCCTGAAAAGGATTTGAAGACAGCTTGAAGGATAAAAAGCCT
CGGTGCTTCCCAGGCGCCGAGCCGAGGAGCCGAAGAGGAAGAGCCGGGGCTGCCGGAGCCTTCA
GAGATGGACGAGCAGCCGAGGCTGATGCATTCCCACGCTGGGGTCGGGATGGCCGGACACCCCG
GCCTGTCCCAGCACTTGCAGGATGGGGCCGGAGGGACCGAGGGGGAGGGCGGGAGGAAGCAGGA
CATCGGGGACATTTTACAGCAAATTATGACCATCACAGACCAGAGTTTGGATGAAGCGCAGGCC
AGAAAACATGCTTTAAACTGCCACAGAATGAAGCCTGCCTTGTTTAATGTGTTGTGTGAAATCA
AAGAAAAAACAGTTTTGAGTATTCGGGGAGCCCAAGAAGAGGAGCCCACAGACCCCCAGCTCAT
GCGACTGGACAACATGCTGCTAGCAGAAGGGGTGGCGGGGCCTGAGAAGGGCGGAGGCTCGGCA
GCGGCAGCGGCAGCAGCGGCAGCTTCTGGGGGTGCAGGTTCAGACAACTCAGTGGAGCATTCCG
ATTACAGAGCCAAACTCTCACAGATCAGACAAATCTACCACACAGAGCTGGAGAAGTATGAACA
GGCATGCAATGAATTCACCACCCACGTGATGAACCTCCTTCGGGAGCAAAGCCGGACCAGACCC
ATCTCTCCGAAGGAGATCGAGCGGATGGTCAGCATTATTCACCGCAAGTTCAGCTCCATCCAGA
TGCAGCTGAAGCAAAGCACGTGCGAGGCAGTCATGATCCTGCGCTCCCGGTTTCTGGATGCGAG
GCGGAAGAGACGGAATTTCAACAAGCAAGCCACAGAAATTCTGAATGAATATTTCTATTCCCAT
CTCAGCAACCCTTACCCCAGTGAGGAAGCCAAAGAGGAGTTAGCCAAGAAGTGCGGCATCACAG
TCTCCCAGGTATCAAACTGGTTTGGAAATAAGCGAATCCGGTACAAGAAGAACATAGGTAAATT
TCAAGAGGAAGCCAATATTTATGCTGCCAAAACGGCTGTCACTGCCACCAATGTGTCAGCCCAT
GGAAGCCAAGCTAACTCGCCCTCCACTCCCAACTCAGCGGGTGGATACCCTTCGCCATGTTATC
AGCCAGACAGGAGGATACAGTGACGGACTCGCAGCCAGTCAGATGTACAGTCCGCAGGGCATCA
GTGCTAATGGAGGTTGGCAGGATGCTACTACCCCTTCATCAGTGACCTCCCCTACAGAAGGCCC
TGGCAGTGTTCACTCTGATACCTCCAACTGATCTCCCAGCAATCGCATCCCGGCTGACCCTGTG
CCGCAGTTGGGGCAGGGGCAGGAGGGAGGGTTTCTCTCCCAACGCTGAAGCGGTCAGACTGGAG
GTCGAAGCAATCAGCAAACACAATAAGAGTCTCCTTCTCTTCTCTTCTTTGGGATGCTATTTCA
GCCAATCTGGACACTTCTTTATACTCTCTTCCCTTTTTTTCTGGGTAGAAGCCACCCTTCCCTG
CCTCCAGCTATCAGACTGGTTCTGTCATCTTCCCTGGCCCCCGCTCTCTGTTATAGACTCCCTG
GTTCCTGCCTTCTATTATTTCACTGAAGGATTTTTTCCCCCCACAATTAGAGAAATTTAAAAAG
GAAAGACAAATTACAAAGAAACAATAAACGCGTTTGTATGTTTTCAAAAAAAAAAAAAAAAAAA
AAAAAAAAAAAAA

hide sequence

RefSeq Acc Id:

NM_001134862 ⟹ NP_001128334

RefSeq Status:

VALIDATED

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
mRatBN7.2	13	80,312,054 - 80,588,166 (-)	NCBI
Rnor_6.0	13	86,390,741 - 86,671,460 (-)	NCBI
Rnor_5.0	13	91,028,026 - 91,307,274 (-)	NCBI
RGSC_v3.4	13	83,839,256 - 84,115,516 (-)	RGD
Celera	13	80,014,082 - 80,284,838 (-)	RGD

Sequence:

show sequence

TTTGCAAACGGATTAAGCCACAGATTTAAGCGTCGGGAGCCCATTTCTGCCTTGCACAGGAGAT
CGGACTGAAAAACCCAAAGGCAGCTCTGATTTCTTTTCGCCAAGTGGGAAGGTGGTTTATTTTT
CTTGCTTTTTTGGAGTCAACACCCTTCCCCACCAGCCCTTATCCCCACCCTCACCCCGCAACCC
CTTCACGCCCCCTCCCCCTCCCCATCCTCCCACCATCCTCTAAAGAGGCAAAGAGATTTTTTTT
TTCCCTTTTGGTCTTCTTCTTCTTCTTCTTCTTCTTTTTTTTTTTAAACCCTGGTCCCTGTTTA
TCCTGAAAAGGATTTGAAGACAGCTTGAAGGATAAAAAGCCTCGGTGCTTCCCAGGCGCCGAGC
CGAGGAGCCGAAGAGGAAGAGCCGGGGCTGCCGGAGCCTTCAGAGATGGACGAGCAGCCGAGGC
TGATGCATTCCCACGCTGGGGTCGGGATGGCCGGACACCCCGGCCTGTCCCAGCACTTGCAGGA
TGGGGCCGGAGGGACCGAGGGGGAGGGCGGGAGGAAGCAGGACATCGGGGACATTTTACAGCAA
ATTATGACCATCACAGACCAGAGTTTGGATGAAGCGCAGGCCAGAAAACATGCTTTAAACTGCC
ACAGAATGAAGCCTGCCTTGTTTAATGTGTTGTGTGAAATCAAAGAAAAAACAGTTTTGAGTAT
TCGGGGAGCCCAAGAAGAGGAGCCCACAGACCCCCAGCTCATGCGACTGGACAACATGCTGCTA
GCAGAAGGGGTGGCGGGGCCTGAGAAGGGCGGAGGCTCGGCAGCGGCAGCGGCAGCAGCGGCAG
CTTCTGGGGGTGCAGGTTCAGACAACTCAGTGGAGCATTCCGATTACAGAGCCAAACTCTCACA
GATCAGACAAATCTACCACACAGAGCTGGAGAAGTATGAACAGGCATGCAATGAATTCACCACC
CACGTGATGAACCTCCTTCGGGAGCAAAGCCGGACCAGACCCATCTCTCCGAAGGAGATCGAGC
GGATGGTCAGCATTATTCACCGCAAGTTCAGCTCCATCCAGATGCAGCTGAAGCAAAGCACGTG
CGAGGCAGTCATGATCCTGCGCTCCCGGTTTCTGGATGCGAGGCGGAAGAGACGGAATTTCAAC
AAGCAAGCCACAGAAATTCTGAATGAATATTTCTATTCCCATCTCAGCAACCCTTACCCCAGTG
AGGAAGCCAAAGAGGAGTTAGCCAAGAAGTGCGGCATCACAGTCTCCCAGGTATCAAACTGGTT
TGGAAATAAGCGAATCCGGTACAAGAAGAACATAGGTAAATTTCAAGAGGAAGCCAATATTTAT
GCTGCCAAAACGGCTGTCACTGCCACCAATGTGTCAGCCCATGGAAGCCAAGCTAACTCGCCCT
CCACTCCCAACTCAGCGGGTTCTTCCAGTTCTTTTAACATGTCAAACTCTGGAGATTTGTTCAT
GAGCGTGCAGTCACTCAATGGGGATTCTTACCAAGGGGCCCAGGTTGGAGCCAACGTGCAATCA
CAGGTGGATACCCTTCGCCATGTTATCAGCCAGACAGGAGGATACAGTGACGGACTCGCAGCCA
GTCAGATGTACAGTCCGCAGGGCATCAGTGCTAATGGAGGTTGGCAGGATGCTACTACCCCTTC
ATCAGTGACCTCCCCTACAGAAGGCCCTGGCAGTGTTCACTCTGATACCTCCAACTGATCTCCC
AGCAATCGCATCCCGGCTGACCCTGTGCCGCAGTTGGGGCAGGGGCAGGAGGGAGGGTTTCTCT
CCCAACGCTGAAGCGGTCAGACTGGAGGTCGAAGCAATCAGCAAACACAATAAGAGTCTCCTTC
TCTTCTCTTCTTTGGGATGCTATTTCAGCCAATCTGGACACTTCTTTATACTCTCTTCCCTTTT
TTTCTGGGTAGAAGCCACCCTTCCCTGCCTCCAGCTATCAGACTGGTTCTGTCATCTTCCCTGG
CCCCCGCTCTCTGTTATAGACTCCCTGGTTCCTGCCTTCTATTATTTCACTGAAGGATTTTTTC
CCCCCACAATTAGAGAAATTTAAAAAGGAAAGACAAATTACAAAGAAACAATAAACGCGTTTGT
ATGTTTTCATGCTGGTGGTTTGAGGAGCCAAATTTACCTCACGAGGAGCCCTCATCCCTACATT
GACAGGCAATCCTTCTGTTTCCCTTGTTACTCTTACTACCTCTTAGCAGGAATACACCACACTG
CCCTACTCATTCCAGGCCACCCTATCTCCATTTCCCCCTTCTTTCTGGGAACAATCCTGATTTC
TTCCTCTCCTTTCTGGCCCCAGGTGTTTGCTAGGGACTGCCATACCTGGGCTTCTAAAGGTGCC
ACATGTCCCAGTGTAGCTCCATCAGGTTGAGTCCTAGGCAGGAAGTCTAGCAGCGGAGGACACA
AGGAATGGCAAAGGCAGGACTCCTACCAGCTTTCTCATCCTCTTAGAAACAGTTCTTGGTCTCA
GAGGCACAGTCTATGGTGACCATTCGACCATTCAATTTGCAGAACCTCAGGCAAGCCAGGTCTA
AGAGAGGCGTCCTGATGAGGCTGTTTATAAAGAGTGAAGGATCTCATCCTGAAAGGCTTCACTG
TCCCTTCATAGACATGTGCACACATACACAACATACAGGTGGACACATGCACAACCTCACAGCT
TTGCTTCGCAGGATGCTACTAACCTTTCATCAGTGACCTCCCCTGTAGAAGGCCCTGGCAGTGT
TTACTGATACCTCCCAAATGGTCTCCCAACAATCAAGTCCTATACAGACTTACACTAGTGATCA
TAGTACTCTATCTGGTGAGCCCGAGAGAGAAGCGGTATGTGGCTGGGGCTTTTAGGACCCACTA
ACATGTACTTACTACA

hide sequence

RefSeq Acc Id:

XM_039090792 ⟹ XP_038946720

RefSeq Status:

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
mRatBN7.2	13	80,278,766 - 80,588,563 (-)	NCBI

RefSeq Acc Id:

XM_039090794 ⟹ XP_038946722

RefSeq Status:

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
mRatBN7.2	13	80,278,766 - 80,588,560 (-)	NCBI

Protein Sequences


Protein RefSeqs	NP_001094151	(Get FASTA)	NCBI Sequence Viewer
	NP_001128334	(Get FASTA)	NCBI Sequence Viewer
	XP_038946720	(Get FASTA)	NCBI Sequence Viewer
	XP_038946722	(Get FASTA)	NCBI Sequence Viewer
GenBank Protein	AAI61983	(Get FASTA)	NCBI Sequence Viewer
	EDM09274	(Get FASTA)	NCBI Sequence Viewer
	EDM09275	(Get FASTA)	NCBI Sequence Viewer

Reference Sequences

RefSeq Acc Id:

NP_001128334 ⟸ NM_001134862

- Peptide Label:

isoform a

- Sequence:

show sequence

MDEQPRLMHSHAGVGMAGHPGLSQHLQDGAGGTEGEGGRKQDIGDILQQIMTITDQSLDEAQAR
KHALNCHRMKPALFNVLCEIKEKTVLSIRGAQEEEPTDPQLMRLDNMLLAEGVAGPEKGGGSAA
AAAAAAASGGAGSDNSVEHSDYRAKLSQIRQIYHTELEKYEQACNEFTTHVMNLLREQSRTRPI
SPKEIERMVSIIHRKFSSIQMQLKQSTCEAVMILRSRFLDARRKRRNFNKQATEILNEYFYSHL
SNPYPSEEAKEELAKKCGITVSQVSNWFGNKRIRYKKNIGKFQEEANIYAAKTAVTATNVSAHG
SQANSPSTPNSAGSSSSFNMSNSGDLFMSVQSLNGDSYQGAQVGANVQSQVDTLRHVISQTGGY
SDGLAASQMYSPQGISANGGWQDATTPSSVTSPTEGPGSVHSDTSN

hide sequence

RefSeq Acc Id:	NP_001094151 ⟸ NM_001100681
- Peptide Label:	isoform b
- UniProtKB:	B1WC30 (UniProtKB/TrEMBL)
- Sequence:	show sequence MDEQPRLMHSHAGVGMAGHPGLSQHLQDGAGGTEGEGGRKQDIGDILQQIMTITDQSLDEAQAR KHALNCHRMKPALFNVLCEIKEKTVLSIRGAQEEEPTDPQLMRLDNMLLAEGVAGPEKGGGSAA AAAAAAASGGAGSDNSVEHSDYRAKLSQIRQIYHTELEKYEQACNEFTTHVMNLLREQSRTRPI SPKEIERMVSIIHRKFSSIQMQLKQSTCEAVMILRSRFLDARRKRRNFNKQATEILNEYFYSHL SNPYPSEEAKEELAKKCGITVSQVSNWFGNKRIRYKKNIGKFQEEANIYAAKTAVTATNVSAHG SQANSPSTPNSAGGYPSPCYQPDRRIQ hide sequence

RefSeq Acc Id:

ENSRNOP00000039416 ⟸ ENSRNOT00000043004

RefSeq Acc Id:

ENSRNOP00000027996 ⟸ ENSRNOT00000027996

RefSeq Acc Id:	XP_038946720 ⟸ XM_039090792
- Peptide Label:	isoform X1

RefSeq Acc Id:	XP_038946722 ⟸ XM_039090794
- Peptide Label:	isoform X2

RefSeq Acc Id:

ENSRNOP00000093157 ⟸ ENSRNOT00000107293

RefSeq Acc Id:

ENSRNOP00000080916 ⟸ ENSRNOT00000103202

RefSeq Acc Id:

ENSRNOP00000096551 ⟸ ENSRNOT00000106300

Protein Domains

Homeobox

Protein Structures

Name	Modeler	Protein Id	AA Range	Protein Structure
AF-D3ZJI6-F1-model_v2	AlphaFold	D3ZJI6	1-342	view protein structure

Transcriptome

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

Strain Variation

Strain Sequence Variants (mRatBN7.2)

ACI/EurMcwi (2019)

Visual

CSV

TAB

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Platform:	GSPMC-Illumina-NovaSeq6000
Secondary Analysis:	BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder:	MCW
Description:	Dr. Mindy Dwinell - Hybrid rat diversity program

ACI/N (2020)

Visual

CSV

TAB

Printer

Platform:	GSPMC-Illumina-NovaSeq6000
Secondary Analysis:	BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder:	NIH
Description:	Dr. Mindy Dwinell - Hybrid rat diversity program

BN-Lx/CubMcwi (2019)

Visual

CSV

TAB

Printer

Platform:	GSPMC-Illumina-NovaSeq6000
Secondary Analysis:	BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder:	MCW
Description:	Dr. Mindy Dwinell - Hybrid rat diversity program

BN/NHsdMcwi (2019)

Visual

CSV

TAB

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Platform:	GSPMC-Illumina-NovaSeq6000
Secondary Analysis:	BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder:	MCW
Description:	Dr. Mindy Dwinell - Hybrid rat diversity program

BN/NHsdMcwi (2020)

Visual

CSV

TAB

Printer

Platform:	GSPMC-Illumina-NovaSeq6000
Secondary Analysis:	BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder:	MCW
Description:	Dr. Mindy Dwinell - Hybrid rat diversity program

BN/SsN (2020)

Visual

CSV

TAB

Printer

Platform:	GSPMC-Illumina-NovaSeq6000
Secondary Analysis:	BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder:	NIH
Description:	Dr. Mindy Dwinell - Hybrid rat diversity program

BUF/N (2020)

Visual

CSV

TAB

Printer

Platform:	GSPMC-Illumina-NovaSeq6000
Secondary Analysis:	BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder:	NIH
Description:	Dr. Mindy Dwinell - Hybrid rat diversity program

BXH2/CubMcwi (2020)

Visual

CSV

TAB

Printer

Platform:	GSPMC-Illumina-NovaSeq6000
Secondary Analysis:	BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder:	MCW
Description:	Dr. Mindy Dwinell - Hybrid rat diversity program

BXH3/CubMcwi (2020)

Visual

CSV

TAB

Printer

Platform:	GSPMC-Illumina-NovaSeq6000
Secondary Analysis:	BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder:	MCW
Description:	Dr. Mindy Dwinell - Hybrid rat diversity program

DA/OlaHsd (2019)

Visual

CSV

TAB

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Platform:	GSPMC-Illumina-NovaSeq6000
Secondary Analysis:	BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder:	Envigo
Description:	Dr. Mindy Dwinell - Hybrid rat diversity program

F344/DuCrl (2019)

Visual

CSV

TAB

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Platform:	GSPMC-Illumina-NovaSeq6000
Secondary Analysis:	BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder:	Charles River
Description:	Dr. Mindy Dwinell - Hybrid rat diversity program

F344/N (2020)

Visual

CSV

TAB

Printer

Platform:	GSPMC-Illumina-NovaSeq6000
Secondary Analysis:	BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder:	NIH
Description:	Dr. Mindy Dwinell - Hybrid rat diversity program

F344/NCrl (2019)

Visual

CSV

TAB

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Platform:	GSPMC-Illumina-NovaSeq6000
Secondary Analysis:	BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder:	Charles River
Description:	Dr. Mindy Dwinell - Hybrid rat diversity program

F344/Stm (2019)

Visual

CSV

TAB

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Platform:	GSPMC-Illumina-NovaSeq6000
Secondary Analysis:	BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder:	Japan
Description:	Dr. Mindy Dwinell - Hybrid rat diversity program

FHH/EurMcwi (2019)

Visual

CSV

TAB

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Platform:	GSPMC-Illumina-NovaSeq6000
Secondary Analysis:	BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder:	MCW
Description:	Dr. Mindy Dwinell - Hybrid rat diversity program

FXLE16/Stm (2020)

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Platform:	GSPMC-Illumina-NovaSeq6000
Secondary Analysis:	BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder:	Japan
Description:	Dr. Mindy Dwinell - Hybrid rat diversity program

FXLE18/Stm (2020)

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Platform:	GSPMC-Illumina-NovaSeq6000
Secondary Analysis:	BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder:	Japan
Description:	Dr. Mindy Dwinell - Hybrid rat diversity program

GK/FarMcwi (2019)

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Platform:	GSPMC-Illumina-NovaSeq6000
Secondary Analysis:	BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder:	MCW
Description:	Dr. Mindy Dwinell - Hybrid rat diversity program

HXB10/IpcvMcwi (2019)

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Platform:	GSPMC-Illumina-NovaSeq6000
Secondary Analysis:	BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder:	MCW
Description:	Dr. Mindy Dwinell - Hybrid rat diversity program

HXB2/IpcvMcwi (2019)

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Platform:	GSPMC-Illumina-NovaSeq6000
Secondary Analysis:	BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder:	MCW
Description:	Dr. Mindy Dwinell - Hybrid rat diversity program

HXB20/IpcvMcwi (2020)

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Platform:	GSPMC-Illumina-NovaSeq6000
Secondary Analysis:	BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder:	MCW
Description:	Dr. Mindy Dwinell - Hybrid rat diversity program

HXB31/IpcvMcwi (2019)

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Platform:	GSPMC-Illumina-NovaSeq6000
Secondary Analysis:	BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder:	MCW
Description:	Dr. Mindy Dwinell - Hybrid rat diversity program

HXB4/IpcvMcwi (2020)

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Platform:	GSPMC-Illumina-NovaSeq6000
Secondary Analysis:	BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder:	MCW
Description:	Dr. Mindy Dwinell - Hybrid rat diversity program

LE/Stm (2019)

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Platform:	GSPMC-Illumina-NovaSeq6000
Secondary Analysis:	BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder:	MCW
Description:	Dr. Mindy Dwinell - Hybrid rat diversity program

LEW/Crl (2019)

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Platform:	GSPMC-Illumina-NovaSeq6000
Secondary Analysis:	BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder:	Charles River
Description:	Dr. Mindy Dwinell - Hybrid rat diversity program

LEXF10A/StmMcwi (2020)

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Platform:	GSPMC-Illumina-NovaSeq6000
Secondary Analysis:	BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder:	MCW
Description:	Dr. Mindy Dwinell - Hybrid rat diversity program

LEXF11/Stm (2020)

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Platform:	GSPMC-Illumina-NovaSeq6000
Secondary Analysis:	BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder:	Japan
Description:	Dr. Mindy Dwinell - Hybrid rat diversity program

LEXF1A/Stm (2019)

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Platform:	GSPMC-Illumina-NovaSeq6000
Secondary Analysis:	BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder:	Japan
Description:	Dr. Mindy Dwinell - Hybrid rat diversity program

LEXF1C/Stm (2019)

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Platform:	GSPMC-Illumina-NovaSeq6000
Secondary Analysis:	BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder:	Japan
Description:	Dr. Mindy Dwinell - Hybrid rat diversity program

LEXF2B/Stm (2019)

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Platform:	GSPMC-Illumina-NovaSeq6000
Secondary Analysis:	BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder:	Japan
Description:	Dr. Mindy Dwinell - Hybrid rat diversity program

LEXF3/Stm (2020)

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Platform:	GSPMC-Illumina-NovaSeq6000
Secondary Analysis:	BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder:	Japan
Description:	Dr. Mindy Dwinell - Hybrid rat diversity program

LEXF4/Stm (2020)

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Platform:	GSPMC-Illumina-NovaSeq6000
Secondary Analysis:	BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder:	Japan
Description:	Dr. Mindy Dwinell - Hybrid rat diversity program

LH/MavRrrcAek (2020)

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Platform:	GSPMC-Illumina-NovaSeq6000
Secondary Analysis:	BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder:	Kwitek
Description:	Dr. Mindy Dwinell - Hybrid rat diversity program

LL/MavRrrcAek (2020)

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Platform:	GSPMC-Illumina-NovaSeq6000
Secondary Analysis:	BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder:	Kwitek
Description:	Dr. Mindy Dwinell - Hybrid rat diversity program

LN/MavRrrcAek (2020)

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Platform:	GSPMC-Illumina-NovaSeq6000
Secondary Analysis:	BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder:	Kwitek
Description:	Dr. Mindy Dwinell - Hybrid rat diversity program

M520/N (2020)

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Platform:	GSPMC-Illumina-NovaSeq6000
Secondary Analysis:	BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder:	NIH
Description:	Dr. Mindy Dwinell - Hybrid rat diversity program

M520/NRrrcMcwi (2019)

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Platform:	GSPMC-Illumina-NovaSeq6000
Secondary Analysis:	BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder:	MCW
Description:	Dr. Mindy Dwinell - Hybrid rat diversity program

MR/N (2020)

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Platform:	GSPMC-Illumina-NovaSeq6000
Secondary Analysis:	BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder:	NIH
Description:	Dr. Mindy Dwinell - Hybrid rat diversity program

MWF/Hsd (2019)

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Platform:	GSPMC-Illumina-NovaSeq6000
Secondary Analysis:	BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder:	MCW
Description:	Dr. Mindy Dwinell - Hybrid rat diversity program

PVG/Seac (2019)

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Platform:	GSPMC-Illumina-NovaSeq6000
Secondary Analysis:	BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder:	Japan
Description:	Dr. Mindy Dwinell - Hybrid rat diversity program

SHR/OlalpcvMcwi (2019)

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Platform:	GSPMC-Illumina-NovaSeq6000
Secondary Analysis:	BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder:	MCW
Description:	Dr. Mindy Dwinell - Hybrid rat diversity program

SHRSP/A3NCrl (2019)

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Platform:	GSPMC-Illumina-NovaSeq6000
Secondary Analysis:	BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder:	Charles River
Description:	Dr. Mindy Dwinell - Hybrid rat diversity program

SR/JrHsd (2020)

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Platform:	GSPMC-Illumina-NovaSeq6000
Secondary Analysis:	BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder:	Envigo
Description:	Dr. Mindy Dwinell - Hybrid rat diversity program

SS/JrHsdMcwi (2019)

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Platform:	GSPMC-Illumina-NovaSeq6000
Secondary Analysis:	BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder:	MCW
Description:	Dr. Mindy Dwinell - Hybrid rat diversity program

WAG/RijCrl (2020)

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Platform:	GSPMC-Illumina-NovaSeq6000
Secondary Analysis:	BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder:	Charles River
Description:	Dr. Mindy Dwinell - Hybrid rat diversity program

WKY/N (2020)

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Platform:	GSPMC-Illumina-NovaSeq6000
Secondary Analysis:	BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder:	NIH
Description:	Dr. Mindy Dwinell - Hybrid rat diversity program

WKY/NCrl (2019)

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Platform:	GSPMC-Illumina-NovaSeq6000
Secondary Analysis:	BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder:	Charles River
Description:	Dr. Mindy Dwinell - Hybrid rat diversity program

WN/N (2020)

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Platform:	GSPMC-Illumina-NovaSeq6000
Secondary Analysis:	BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder:	NIH
Description:	Dr. Mindy Dwinell - Hybrid rat diversity program

Additional Information

External Database Links

Database	Acc Id	Source(s)
AGR Gene	RGD:1308213	AgrOrtholog
BioCyc Gene	G2FUF-17500	BioCyc
Ensembl Genes	ENSRNOG00000004693	Ensembl
	ENSRNOG00000070119	Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Protein	ENSRNOP00000027996	ENTREZGENE
	ENSRNOP00000027996.5	UniProtKB/TrEMBL
	ENSRNOP00000080916	ENTREZGENE
	ENSRNOP00000080916.1	UniProtKB/TrEMBL
	ENSRNOP00000093157.1	UniProtKB/TrEMBL
	ENSRNOP00000096551	ENTREZGENE
	ENSRNOP00000096551.1	UniProtKB/TrEMBL
Ensembl Transcript	ENSRNOT00000027996	ENTREZGENE
	ENSRNOT00000027996.5	UniProtKB/TrEMBL
	ENSRNOT00000103202	ENTREZGENE
	ENSRNOT00000103202.1	UniProtKB/TrEMBL
	ENSRNOT00000106300	ENTREZGENE
	ENSRNOT00000106300.1	UniProtKB/TrEMBL
	ENSRNOT00000107293.1	UniProtKB/TrEMBL
IMAGE_CLONE	IMAGE:9030389	IMAGE-MGC_LOAD
InterPro	Homeobox_CS	UniProtKB/TrEMBL
	Homeodomain	UniProtKB/TrEMBL
	Homeodomain-like	UniProtKB/TrEMBL
	PBX	UniProtKB/TrEMBL
KEGG Report	rno:304947	UniProtKB/TrEMBL
MGC_CLONE	MGC:187800	IMAGE-MGC_LOAD
NCBI Gene	304947	ENTREZGENE
Pfam	Homeobox	UniProtKB/TrEMBL
	PBC	UniProtKB/TrEMBL
PhenoGen	Pbx1	PhenoGen
PROSITE	HOMEOBOX_1	UniProtKB/TrEMBL
	HOMEOBOX_2	UniProtKB/TrEMBL
SMART	HOX	UniProtKB/TrEMBL
Superfamily-SCOP	Homeodomain_like	UniProtKB/TrEMBL
UniProt	A0A8I5ZR45_RAT	UniProtKB/TrEMBL
	A0A8I6AJF6_RAT	UniProtKB/TrEMBL
	B1WC30	ENTREZGENE, UniProtKB/TrEMBL
	F7EV88_RAT	UniProtKB/TrEMBL

Nomenclature History

Date	Current Symbol	Current Name	Previous Symbol	Previous Name	Description	Reference	Status
2016-05-26	Pbx1	PBX homeobox 1	Pbx1	pre-B-cell leukemia homeobox 1	Nomenclature updated to reflect human and mouse nomenclature	1299863	APPROVED
2008-10-30	Pbx1	pre-B-cell leukemia homeobox 1	Pbx1	pre-B-cell leukemia transcription factor 1	Nomenclature updated to reflect human and mouse nomenclature	1299863	APPROVED
2008-04-30	Pbx1	pre-B-cell leukemia transcription factor 1	Pbx1_predicted	pre-B-cell leukemia transcription factor 1 (predicted)	'predicted' is removed	2292626	APPROVED
2005-01-12	Pbx1_predicted	pre-B-cell leukemia transcription factor 1 (predicted)			Symbol and Name status set to approved	70820	APPROVED

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 - OMIM

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