Nbn (nibrin) - Rat Genome Database

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

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Gene: Nbn (nibrin) Rattus norvegicus

Analyze

Symbol:

Nbn

Name:

nibrin

RGD ID:

621420

Description:

Predicted to enable DNA-binding transcription factor binding activity and damaged DNA binding activity. Involved in several processes, including negative regulation of neuron differentiation; negative regulation of viral entry into host cell; and regulation of fibroblast proliferation. Predicted to be located in chromosome and nucleus. Predicted to be part of BRCA1-C complex and Mre11 complex. Predicted to colocalize with chromosome, telomeric region. Human ortholog(s) of this gene implicated in several diseases, including Nijmegen breakage syndrome; acute lymphoblastic leukemia; breast cancer; rectum cancer; and reproductive organ cancer (multiple). Orthologous to human NBN (nibrin); PARTICIPATES IN ataxia telangiectasia-mutated (ATM) signaling pathway; homologous recombination pathway of double-strand break repair; INTERACTS WITH (S)-colchicine; 2,3,7,8-tetrachlorodibenzodioxine; 2,4-dinitrotoluene.

Type:

protein-coding

RefSeq Status:

PROVISIONAL

Previously known as:

MGC93174; Nbs1; nijmegen breakage syndrome protein 1 homolog

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):	NBN (nibrin)	HGNC	EggNOG, Ensembl, HomoloGene, Inparanoid, NCBI, OMA, OrthoDB, OrthoMCL, Panther, Treefam
Mus musculus (house mouse):	Nbn (nibrin)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Chinchilla lanigera (long-tailed chinchilla):	Nbn (nibrin)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Pan paniscus (bonobo/pygmy chimpanzee):	NBN (nibrin)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Canis lupus familiaris (dog):	NBN (nibrin)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Ictidomys tridecemlineatus (thirteen-lined ground squirrel):	Nbn (nibrin)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Sus scrofa (pig):	NBN (nibrin)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Chlorocebus sabaeus (green monkey):	NBN (nibrin)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Heterocephalus glaber (naked mole-rat):	Nbn (nibrin)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Alliance orthologs ³
Mus musculus (house mouse):	Nbn (nibrin)	Alliance	DIOPT (Ensembl Compara\|Hieranoid\|InParanoid\|OMA\|OrthoFinder\|OrthoInspector\|PANTHER\|PhylomeDB\|SonicParanoid)
Homo sapiens (human):	NBN (nibrin)	Alliance	DIOPT (Ensembl Compara\|HGNC\|Hieranoid\|InParanoid\|OMA\|OrthoFinder\|OrthoInspector\|PANTHER\|PhylomeDB\|SonicParanoid)
Danio rerio (zebrafish):	nbn (nibrin)	Alliance	DIOPT (Ensembl Compara\|Hieranoid\|InParanoid\|OMA\|OrthoFinder\|OrthoInspector\|PANTHER\|PhylomeDB\|SonicParanoid)
Drosophila melanogaster (fruit fly):	nbs	Alliance	DIOPT (Ensembl Compara\|InParanoid\|OrthoFinder\|OrthoInspector\|PANTHER\|PhylomeDB\|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	29,459,574 - 29,494,152 (+)	NCBI	mRatBN7.2	mRatBN7.2
mRatBN7.2 Ensembl	5	29,459,457 - 29,494,150 (+)	Ensembl		mRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx	5	31,615,796 - 31,650,590 (+)	NCBI	Rnor_SHR
UTH_Rnor_SHRSP_BbbUtx_1.0	5	33,208,466 - 33,243,256 (+)	NCBI	Rnor_SHRSP
UTH_Rnor_WKY_Bbb_1.0	5	33,168,642 - 33,203,436 (+)	NCBI	Rnor_WKY
Rnor_6.0	5	29,622,347 - 29,656,877 (+)	NCBI	Rnor6.0	Rnor_6.0	rn6	Rnor6.0
Rnor_6.0 Ensembl	5	29,622,281 - 29,656,864 (+)	Ensembl	Rnor6.0		rn6	Rnor6.0
Rnor_5.0	5	34,300,932 - 34,335,393 (+)	NCBI	Rnor5.0	Rnor_5.0	rn5	Rnor5.0
RGSC_v3.4	5	30,541,610 - 30,576,168 (+)	NCBI	RGSC3.4	RGSC_v3.4	rn4	RGSC3.4
RGSC_v3.1	5	30,541,609 - 30,576,168 (+)	NCBI
Celera	5	28,665,088 - 28,699,404 (+)	NCBI		Celera
Cytogenetic Map	5	q13	NCBI

JBrowse:

View Region in Genome Browser (JBrowse)

Model

Annotation Click to see Annotation Detail View

Disease Annotations Click to see Annotation Detail View

acute lymphoblastic leukemia (ISO)

Alzheimer's disease (ISO)

aplastic anemia (ISO)

breast cancer (ISO)

Breast Cancer, Familial (ISO)

breast carcinoma (ISO)

colon carcinoma (ISO)

COVID-19 (ISO)

disease of metabolism (ISO)

genetic disease (ISO)

hepatocellular carcinoma (ISO)

hereditary breast ovarian cancer syndrome (ISO)

Hereditary Neoplastic Syndromes (ISO)

lissencephaly (ISO)

Neoplasm Recurrence, Local (ISO)

Nijmegen breakage syndrome (ISO)

ovarian cancer (ISO)

ovarian carcinoma (ISO)

pancreatic carcinoma (ISO)

primary ovarian insufficiency (ISO)

prostate cancer (ISO)

Prostatic Neoplasms (ISO)

rectum cancer (ISO)

stomatitis (ISO)

T-cell acute lymphoblastic leukemia (ISS)

Gene-Chemical Interaction Annotations Click to see Annotation Detail View

(-)-epigallocatechin 3-gallate (ISO)

(S)-colchicine (EXP)

1,2-dimethylhydrazine (ISO)

17alpha-ethynylestradiol (ISO)

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

2,4-dinitrotoluene (EXP)

2-methoxyethanol (EXP)

4-hydroxynon-2-enal (ISO)

5-aza-2'-deoxycytidine (ISO)

5-fluorouracil (ISO)

acrolein (ISO)

aflatoxin M1 (ISO)

all-trans-retinoic acid (ISO)

alpha-pinene (ISO)

ammonium chloride (EXP)

aristolochic acid A (EXP,ISO)

Aroclor 1254 (ISO)

arsenous acid (EXP,ISO)

atrazine (ISO)

benzene (ISO)

bis(2-chloroethyl) sulfide (ISO)

bisphenol A (EXP,ISO)

butanal (ISO)

caffeine (ISO)

celastrol (ISO)

CGP 52608 (ISO)

cisplatin (ISO)

copper(II) sulfate (ISO)

delphinidin (ISO)

diarsenic trioxide (EXP,ISO)

dorsomorphin (ISO)

doxorubicin (EXP,ISO)

entinostat (ISO)

enzyme inhibitor (ISO)

fenofibrate (EXP)

finasteride (EXP)

folic acid (ISO)

gedunin (ISO)

genistein (ISO)

glafenine (EXP)

hexadecanoic acid (ISO)

isoprenaline (ISO)

isotretinoin (ISO)

ivermectin (ISO)

methylmercury chloride (ISO)

myristicin (ISO)

N-acetyl-L-cysteine (ISO)

N-methyl-4-phenylpyridinium (ISO)

N-nitrosodiethylamine (EXP)

Nonidet P-40 (ISO)

oxaliplatin (EXP)

ozone (ISO)

paracetamol (EXP,ISO)

paraquat (ISO)

parathion (ISO)

pentamidine (ISO)

pirinixic acid (EXP,ISO)

potassium chromate (ISO)

potassium dichromate (ISO)

Ptaquiloside (ISO)

quercetin (ISO)

resveratrol (ISO)

riddelliine (ISO)

SB 431542 (ISO)

topotecan (EXP)

trichostatin A (ISO)

triptonide (ISO)

valproic acid (ISO)

vincaleukoblastine (EXP)

vinclozolin (EXP)

vincristine (EXP)

vorinostat (ISO)

Gene Ontology Annotations Click to see Annotation Detail View

Biological Process

blastocyst growth (IEA,ISO,ISS)

DNA damage checkpoint signaling (ISO)

DNA duplex unwinding (IBA,IEA,ISO)

double-strand break repair (IEA,ISO,ISS)

double-strand break repair via homologous recombination (IBA)

in utero embryonic development (ISO,ISS)

intrinsic apoptotic signaling pathway (IEA,ISO)

isotype switching (IEA,ISO,ISS)

meiotic cell cycle (IEA)

mitotic G2 DNA damage checkpoint signaling (IBA,IEA,ISO,ISS)

negative regulation of neuron differentiation (IMP)

negative regulation of telomere capping (IEA,ISO)

negative regulation of viral entry into host cell (IMP)

neuroblast proliferation (IEA,ISO)

neuromuscular process controlling balance (IEA,ISO)

positive regulation of cell population proliferation (IMP)

positive regulation of kinase activity (IEA,ISO)

positive regulation of protein autophosphorylation (IEA,ISO)

positive regulation of telomere maintenance (IEA,ISO)

regulation of fibroblast proliferation (IDA)

response to xenobiotic stimulus (IEP)

t-circle formation (IEA,ISO)

telomere maintenance (IEA,ISO,ISS)

telomere maintenance via telomere trimming (ISO)

telomeric 3' overhang formation (IEA,ISO)

Cellular Component

BRCA1-C complex (IEA,ISO)

cellular_component (ND)

chromosome, telomeric region (IEA,ISO)

Golgi apparatus (IEA,ISO)

Mre11 complex (IBA,IEA,ISO,ISS)

nuclear inclusion body (IEA,ISO,ISS)

nucleolus (IEA,ISO)

nucleoplasm (ISO)

nucleus (ISO)

PML body (IEA,ISO)

replication fork (IEA,ISO)

site of double-strand break (IEA,ISO)

Molecular Function

damaged DNA binding (IBA,IEA,ISO)

DNA-binding transcription factor binding (IEA,ISO,ISS)

molecular_function (ND)

obsolete protein N-terminus binding (ISO)

protein binding (ISO,ISS)

Molecular Pathway Annotations Click to see Annotation Detail View

ataxia telangiectasia-mutated (ATM) signaling pathway (ISO)

homologous recombination pathway of double-strand break repair (IEA,ISO,ISS)

References

References - curated

#	Reference Title	Reference Citation
1.	ATM protein kinase: the linchpin of cellular defenses to stress.	Bhatti S, etal., Cell Mol Life Sci. 2011 Sep;68(18):2977-3006. doi: 10.1007/s00018-011-0683-9. Epub 2011 May 2.
2.	Diagnostic markers of ovarian cancer by high-throughput antigen cloning and detection on arrays.	Chatterjee M, etal., Cancer Res. 2006 Jan 15;66(2):1181-90.
3.	c-Myc directly regulates the transcription of the NBS1 gene involved in DNA double-strand break repair.	Chiang YC, etal., J Biol Chem. 2003 May 23;278(21):19286-91. Epub 2003 Mar 13.
4.	NBS1 is a prostate cancer susceptibility gene.	Cybulski C, etal., Cancer Res. 2004 Feb 15;64(4):1215-9.
5.	A Rad50-dependent pathway of DNA repair is deficient in Fanconi anemia fibroblasts.	Donahue SL and Campbell C, Nucleic Acids Res 2004 Jun 15;32(10):3248-57. Print 2004.
6.	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.
7.	Regulation of homologous recombination in eukaryotes.	Heyer WD, etal., Annu Rev Genet. 2010;44:113-39. doi: 10.1146/annurev-genet-051710-150955.
8.	Breast cancer risk is associated with the genes encoding the DNA double-strand break repair Mre11/Rad50/Nbs1 complex.	Hsu HM, etal., Cancer Epidemiol Biomarkers Prev. 2007 Oct;16(10):2024-32.
9.	Deficiency of the Mre11 DNA repair complex in Alzheimer's disease brains.	Jacobsen E, etal., Brain Res Mol Brain Res. 2004 Sep 10;128(1):1-7.
10.	The MRE11-NBS1-RAD50 pathway is perturbed in SV40 large T antigen-immortalized AT-1, AT-2 and HL-1 cardiomyocytes.	Lanson NA Jr, etal., Nucleic Acids Res 2000 Aug 1;28(15):2882-92.
11.	NBS1, the Nijmegen breakage syndrome gene product, regulates neuronal proliferation and differentiation.	Lee WT, etal., J Neurochem. 2007 Jul;102(1):141-52. Epub 2007 Apr 17.
12.	Terminal differentiation of cardiac and skeletal myocytes induces permissivity to AAV transduction by relieving inhibition imposed by DNA damage response proteins.	Lovric J, etal., Mol Ther. 2012 Nov;20(11):2087-97. doi: 10.1038/mt.2012.144. Epub 2012 Jul 31.
13.	Rat ISS GO annotations from MGI mouse gene data--August 2006	MGD data from the GO Consortium
14.	Double-strand break repair and colorectal cancer: gene variants within 3' UTRs and microRNAs binding as modulators of cancer risk and clinical outcome.	Naccarati A, etal., Oncotarget. 2016 Apr 26;7(17):23156-69. doi: 10.18632/oncotarget.6804.
15.	Electronic Transfer of LocusLink and RefSeq Data	NCBI rat LocusLink and RefSeq merged data July 26, 2002
16.	Possible involvement of oxidative stress in fenofibrate-induced hepatocarcinogenesis in rats.	Nishimura J, etal., Arch Toxicol. 2008 Feb 6.
17.	OMIM Disease Annotation Pipeline	OMIM Disease Annotation Pipeline
18.	KEGG Annotation Import Pipeline	Pipeline to import KEGG annotations from KEGG into RGD
19.	GOA pipeline	RGD automated data pipeline
20.	ClinVar Automated Import and Annotation Pipeline	RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
21.	Data Import for Chemical-Gene Interactions	RGD automated import pipeline for gene-chemical interactions
22.	Comprehensive gene review and curation	RGD comprehensive gene curation
23.	I171V germline mutation in the NBS1 gene significantly increases risk of breast cancer.	Roznowski K, etal., Breast Cancer Res Treat. 2008 Jul;110(2):343-8. Epub 2007 Sep 26.
24.	Intact Mre11/Rad50/Nbs1 complex predicts good response to radiotherapy in early breast cancer.	Soderlund K, etal., Int J Radiat Oncol Biol Phys. 2007 May 1;68(1):50-8. Epub 2007 Mar 6.
25.	Nibrin, a novel DNA double-strand break repair protein, is mutated in Nijmegen breakage syndrome.	Varon R, etal., Cell. 1998 May 1;93(3):467-76.
26.	DNA damage: a trigger of innate immunity but a requirement for adaptive immune homeostasis.	Xu Y Nat Rev Immunol. 2006 Apr;6(4):261-70.

Additional References at PubMed

PMID:9590181	PMID:10766245	PMID:10811102	PMID:10888888	PMID:11438675	PMID:11448772	PMID:11486038	PMID:11555636	PMID:11934988	PMID:12447371	PMID:12470659	PMID:12477932
PMID:12529385	PMID:14612522	PMID:15489334	PMID:15668383	PMID:15790808	PMID:15821748	PMID:15916964	PMID:16374507	PMID:17694070	PMID:18614044	PMID:19135898	PMID:19151086
PMID:23444137	PMID:27918544

Genomics

Comparative Map Data

Nbn
(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	29,459,574 - 29,494,152 (+)	NCBI	mRatBN7.2	mRatBN7.2
mRatBN7.2 Ensembl	5	29,459,457 - 29,494,150 (+)	Ensembl		mRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx	5	31,615,796 - 31,650,590 (+)	NCBI	Rnor_SHR
UTH_Rnor_SHRSP_BbbUtx_1.0	5	33,208,466 - 33,243,256 (+)	NCBI	Rnor_SHRSP
UTH_Rnor_WKY_Bbb_1.0	5	33,168,642 - 33,203,436 (+)	NCBI	Rnor_WKY
Rnor_6.0	5	29,622,347 - 29,656,877 (+)	NCBI	Rnor6.0	Rnor_6.0	rn6	Rnor6.0
Rnor_6.0 Ensembl	5	29,622,281 - 29,656,864 (+)	Ensembl	Rnor6.0		rn6	Rnor6.0
Rnor_5.0	5	34,300,932 - 34,335,393 (+)	NCBI	Rnor5.0	Rnor_5.0	rn5	Rnor5.0
RGSC_v3.4	5	30,541,610 - 30,576,168 (+)	NCBI	RGSC3.4	RGSC_v3.4	rn4	RGSC3.4
RGSC_v3.1	5	30,541,609 - 30,576,168 (+)	NCBI
Celera	5	28,665,088 - 28,699,404 (+)	NCBI		Celera
Cytogenetic Map	5	q13	NCBI

NBN
(Homo sapiens - human)

Human Assembly	Chr	Position (strand)	Source	Genome Browsers
Human Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCh38	8	89,933,331 - 89,984,667 (-)	NCBI	GRCh38	GRCh38	hg38	GRCh38
GRCh38.p13 Ensembl	8	89,924,515 - 90,003,228 (-)	Ensembl	GRCh38		hg38	GRCh38
GRCh37	8	90,945,559 - 90,996,895 (-)	NCBI	GRCh37	GRCh37	hg19	GRCh37
Build 36	8	91,014,740 - 91,066,075 (-)	NCBI	NCBI36	Build 36	hg18	NCBI36
Build 34	8	91,014,888 - 91,066,072	NCBI
Celera	8	87,140,375 - 87,191,710 (-)	NCBI		Celera
Cytogenetic Map	8	q21.3	NCBI
HuRef	8	86,155,741 - 86,207,078 (-)	NCBI		HuRef
CHM1_1	8	90,986,489 - 91,037,825 (-)	NCBI		CHM1_1
T2T-CHM13v2.0	8	91,056,512 - 91,107,848 (-)	NCBI		T2T-CHM13v2.0

Nbn
(Mus musculus - house mouse)

Mouse Assembly	Chr	Position (strand)	Source	Genome Browsers
Mouse Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCm39	4	15,955,388 - 15,992,589 (+)	NCBI	GRCm39	GRCm39	mm39
GRCm39 Ensembl	4	15,957,925 - 15,992,589 (+)	Ensembl		GRCm39 Ensembl
GRCm38	4	15,957,587 - 15,992,589 (+)	NCBI	GRCm38	GRCm38	mm10	GRCm38
GRCm38.p6 Ensembl	4	15,957,925 - 15,992,589 (+)	Ensembl	GRCm38		mm10	GRCm38
MGSCv37	4	15,885,114 - 15,919,736 (+)	NCBI	GRCm37	MGSCv37	mm9	NCBIm37
MGSCv36	4	15,885,115 - 15,919,736 (+)	NCBI		MGSCv36	mm8
Celera	4	15,761,229 - 15,795,887 (+)	NCBI		Celera
Cytogenetic Map	4	A2	NCBI

Nbn
(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_004955417	6,839,312 - 6,880,133 (-)	Ensembl	ChiLan1.0
ChiLan1.0	NW_004955417	6,840,916 - 6,880,479 (-)	NCBI	ChiLan1.0	ChiLan1.0

NBN
(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	8	88,575,198 - 88,626,200 (-)	NCBI	panpan1.1	PanPan1.1	panPan2
PanPan1.1 Ensembl	8	88,575,198 - 88,626,307 (-)	Ensembl	panpan1.1		panPan2
Mhudiblu_PPA_v0	8	86,622,797 - 86,674,202 (-)	NCBI	Mhudiblu_PPA_v0	Mhudiblu_PPA_v0	panPan3

NBN
(Canis lupus familiaris - dog)

Dog Assembly	Chr	Position (strand)	Source	Genome Browsers
Dog Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
CanFam3.1	29	35,416,093 - 35,477,569 (-)	NCBI	CanFam3.1	CanFam3.1	canFam3	CanFam3.1
CanFam3.1 Ensembl	29	35,416,093 - 35,477,563 (-)	Ensembl	CanFam3.1		canFam3	CanFam3.1
Dog10K_Boxer_Tasha	29	35,567,773 - 35,628,935 (-)	NCBI		Dog10K_Boxer_Tasha
ROS_Cfam_1.0	29	35,612,774 - 35,674,851 (-)	NCBI		ROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl	29	35,612,774 - 35,692,878 (-)	Ensembl		ROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.1	29	35,604,159 - 35,665,432 (-)	NCBI		UMICH_Zoey_3.1
UNSW_CanFamBas_1.0	29	35,624,597 - 35,685,889 (-)	NCBI		UNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0	29	36,059,084 - 36,120,657 (-)	NCBI		UU_Cfam_GSD_1.0

Nbn
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)

Squirrel Assembly	Chr	Position (strand)	Source	Genome Browsers
Squirrel Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
HiC_Itri_2	NW_024405303	43,980,776 - 44,018,864 (+)	NCBI		HiC_Itri_2
SpeTri2.0 Ensembl	NW_004936544	3,775,220 - 3,808,837 (-)	Ensembl	SpeTri2.0
SpeTri2.0	NW_004936544	3,773,828 - 3,812,673 (-)	NCBI	SpeTri2.0	SpeTri2.0		SpeTri2.0

NBN
(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	46,787,691 - 46,874,603 (+)	Ensembl	Sscrofa11.1		susScr11	Sscrofa11.1
Sscrofa11.1	4	46,787,664 - 46,854,331 (+)	NCBI	Sscrofa11.1	Sscrofa11.1	susScr11	Sscrofa11.1
Sscrofa10.2	4	51,264,106 - 51,288,533 (+)	NCBI	Sscrofa10.2	Sscrofa10.2	susScr3

NBN
(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	8	85,017,807 - 85,069,219 (-)	NCBI	ChlSab1.1	ChlSab1.1	chlSab2
ChlSab1.1 Ensembl	8	85,015,752 - 85,069,028 (-)	Ensembl	ChlSab1.1	ChlSab1.1 Ensembl	chlSab2
Vero_WHO_p1.0	NW_023666039	55,810,092 - 55,861,864 (+)	NCBI	Vero_WHO_p1.0	Vero_WHO_p1.0

Nbn
(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_004624744	2,013,922 - 2,061,708 (+)	Ensembl	HetGla_female_1.0	HetGla_female_1.0 Ensembl	hetGla2
HetGla 1.0	NW_004624744	2,013,936 - 2,061,726 (+)	NCBI	HetGla_female_1.0	HetGla 1.0	hetGla2

Variants

Variants in Nbn
385 total Variants

miRNA Target Status

Predicted Target Of

	Summary Value
Count of predictions:	196
Count of miRNA genes:	148
Interacting mature miRNAs:	159
Transcripts:	ENSRNOT00000012377
Prediction methods:	Microtar, Miranda, Targetscan
Result types:	miRGate_prediction

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

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

QTLs in Region (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
2312562	Pur18	Proteinuria QTL 18	2.6	0.001	urine total protein amount (VT:0000032)	urine total protein excretion rate (CMO:0000756)	5	2138965	32656739	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
1300117	Hrtrt8	Heart rate QTL 8	3.49		heart pumping trait (VT:2000009)	heart rate (CMO:0000002)	5	3844018	47869213	Rat
61462	Niddm10	Non-insulin dependent diabetes mellitus QTL 10	3.9	0.001	blood glucose amount (VT:0000188)	plasma glucose level (CMO:0000042)	5	5112159	47171491	Rat
2293666	Bmd38	Bone mineral density QTL 38	4.4		femur size trait (VT:1000369)	femoral neck cortical cross-sectional area (CMO:0001702)	5	8948228	53948228	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
1549901	Neudeg2	Neurodegradation QTL 2	4	0	nervous system integrity trait (VT:0010566)	mononuclear cell count (CMO:0002119)	5	24838710	44045280	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

Markers in Region

AW530937

Rat Assembly	Chr	Position (strand)	Source	JBrowse
mRatBN7.2	5	29,486,006 - 29,486,190 (+)	MAPPER	mRatBN7.2
Rnor_6.0	5	29,648,732 - 29,648,915	NCBI	Rnor6.0
Rnor_5.0	5	34,327,248 - 34,327,431	UniSTS	Rnor5.0
RGSC_v3.4	5	30,568,048 - 30,568,231	UniSTS	RGSC3.4
Celera	5	28,691,328 - 28,691,511	UniSTS
RH 3.4 Map	5	162.33	UniSTS
Cytogenetic Map	5	q13	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	43	57	41	19	41	8	10	74	35	41	11	8
Low								1
Below cutoff

View RNA-SEQ Expression Data

Sequence

Nucleotide Sequences


RefSeq Transcripts	NM_138873	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	XM_006237916	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	XM_039110890	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
GenBank Nucleotide	AC108261	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	AF218575	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	BC085700	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	CH473962	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	JACYVU010000161	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles

Reference Sequences

RefSeq Acc Id:

ENSRNOT00000012377 ⟹ ENSRNOP00000012377

RefSeq Status:

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
mRatBN7.2 Ensembl	5	29,459,457 - 29,494,150 (+)	Ensembl
Rnor_6.0 Ensembl	5	29,622,281 - 29,656,864 (+)	Ensembl

RefSeq Acc Id:

ENSRNOT00000111074 ⟹ ENSRNOP00000091774

RefSeq Status:

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
mRatBN7.2 Ensembl	5	29,464,003 - 29,491,605 (+)	Ensembl

RefSeq Acc Id:

NM_138873 ⟹ NP_620228

RefSeq Status:

PROVISIONAL

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
mRatBN7.2	5	29,459,663 - 29,494,127 (+)	NCBI
Rnor_6.0	5	29,622,347 - 29,656,852 (+)	NCBI
Rnor_5.0	5	34,300,932 - 34,335,393 (+)	NCBI
RGSC_v3.4	5	30,541,610 - 30,576,168 (+)	RGD
Celera	5	28,665,088 - 28,699,404 (+)	RGD

Sequence:

show sequence

CGTCGCATGTCGCAGTGTTCTGAGACGCCGGACTCATGTGGAAGCTGCTCCCGGCCGCAAGTGC
GGCTCCAGGAGAACCATGTCGACTTTTGGCTGGCGTAGAGTACATTGTTGGGAGGAAAAACTGT
GCCATTCTAATCGAAAATGATCAGTCAATCAGTCGAAATCATGCTGTATTAAGAGTAAACTTTC
CTGTAACCAGTTTGAGTCAAACGGATGAAATTCCTACATTAATAATAAAAGATAATTCTAAGTA
TGGAACCTTTATTAACGAAGAAAAAATGCAGAATGGCCTTTCTTCCACTTTGAAGACAGGAGAT
AGAGTTACCTTTGGGGTGTTTGAAAGTAAATTCAGAGTAGAATACGAGCCTTTGGTTGTTTGCT
CTTCTTGTTTAGATGTCTCTGGGAAAACTGTTTTAAACCAAGCTATATTACAGCTTGGAGGACT
CACTGCAAACAGCTGGACAGAAGAGTGTACTCACCTTGCCATGTCATCAGTCAAAGTCACCATT
AAAACTATATGTGCACTCATTTGTGGACGTCCAATTGTAAAGCCAGAATACTTTTCTGAATTTC
TCAAAGCAGTTGAGTCCAAGACACAACCTCCAGAAATTGAAAGTTTTTACCCACCCATCGATGA
ACCAGCTATTGGAAATAAAAGTGTCGATCTGTCCGGACGACGTGAAAGAAAACAAATCTTCAAA
GGAAAAACATTCGTGTTTTTAAATGCCAAGCAGCATAAGAAACTCGGCTCGGCAGTTGTTTTCG
GAGGTGGGGAAGCCAGGCTGATGGCAGAAGGAGGTGAAGAGGAACAGAGCTTCTTCTCAGCTCC
CGGAACCTGTGTTGTTGACGTAGGAATAACAAACACACAGCTCATAATTACGGACTCCCAGAGG
AAGTGGATTCATTTGATAATGGATATACTTCAAAGGCATGATCTCAGACCTATTCCTGAAGCAG
AGATTGGATTGGCTGTTATTTTTATGACTACAGAGAGTTACTGTAATCCGCAGGGCCAGCCTTG
TACAGAGGTAAAGACGACGACTCCAGGACCAAGCCTTTCCCAGGGCCTGTCAGCCAATGGAAAA
GTCATCCCCAGTGCGCCAATGAATATGACCACATACGTAGCTGACACAGAATCAGAGCCAGCAG
ATACATGTATGTCTCTGAGTGAAAGACCAGAAGAAGTAAAGATCTTTGGACTCGATCAAAACTC
TAGAAAGCTTTTACAAGGAACATGCAATATAAAGGAGACCTCTAATCAAAGCTCCAATTCTAAC
AATGCAGCATCAAATACACTGGTTAGGGGAAAGGCCCCGAACTATCAGCTTTCACCAATGAAAT
GTCCTGCTGCAAGTAAAAATAAAGATTGGTCTTCTCAGCAGCAGCTGAACTCCATCAAAAACTA
CTTCCAGCCATGCTCCAGAAAAAGGGAAAGGGATGAAGAAAATCCAGAACAGTCCTCATGCAAA
TCGTCAAGAGTGGAACTGTCTTGTTCTCTTTTAGAACAAACGCAACCTGCAGAACCCTCACTGT
GGAAAAGCAAAGACCATGAGTCTCAGAGTGAGACTCTGGGCAGGGCATCCAATGCCTCATCTGT
GGGTGGAATAGACATAAAACCCAATGGGAAGAGTCCTGACAGTAAGTCATTTTCCACAGAAGAT
CTTAGAGCAAGAAAAAGAAAAGAAGTGGATTTGTCTACAGAAGAGGAAGTGTTGGAAGAGTTAC
TCAGGAGCACAAAGCCAGAGCTGGCAGTTCAAGTGAAGGTTGAAAAGCAGGAGGCAGATGTCAG
CATCAGAAAGAAGCCCAGGATGGATGCAGAGAGGAATCAGCACCTGAACGGTGGCCCAGTGCCA
GAAAGCAACAGCGCACTTCAAGAAGATGAAACAGAAAAGAAAGATGAGCTTCAGATAGAAGCAT
GGTCAACAAAACGTGAAGTATCTAATACTGATGAGCTTCAGGACAGCAGTGAGGAACTTCCAAG
AAAACTGCTGCTGACTGAATTTAGGTCACTGGTTGTCCATAATAACTCTTCCAGAAATCTGTGC
CCACTAAATGGTCGTGGTGAACTGAAGAATTTCAAGAAATTCAAGAAGGCTACGTGTCCTGGAG
CAGGAAAGCTTCCACACATTATTGGAGGATCAGATTTAATAGGTCACCATGCTCGAAAGAATAC
TGAATTAGAAGAGTGGTTGAAACATGAAATGGAGGTACAGAAACAACAAGCGAAAGAAGACTCT
CTTGCTGATGATCTGTTTAGATATAATCCTAATGTAAAAAGAAGATAATTGAACCTTATAAAGA
AAGCTAGAGAAACACATTTCTACTTCAGACCAACTGGGATACGTGAATGTAGTACATAGAAATT
ACCAATGCTTTAAGGCTTCAGTTTATTAAATAAAGCAAATTCCATTCCTTTTGTGTGGTCTCTG
GGGTAATAAATAATTTCCCCCCTCACTTTAAATGTGTTTCTTACTAAGTAATTACCACAATCTT
AGTGTCCAAAATCCTGAAACTACATTAAGGGTAAGACCAAAGTCTCTTATCCACTAGCTGATTG
ATTTCCACCGTGGGTTGGGGAGTTATATCTATATACAAATA

hide sequence

RefSeq Acc Id:

XM_006237916 ⟹ XP_006237978

RefSeq Status:

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
mRatBN7.2	5	29,459,796 - 29,494,152 (+)	NCBI
Rnor_6.0	5	29,622,515 - 29,656,877 (+)	NCBI
Rnor_5.0	5	34,300,932 - 34,335,393 (+)	NCBI

Sequence:

show sequence

CCTAGCCTTCCGGCGGACCCCTAGGCGGCCGAAGCTGACTGAACACGGAAGCTGGGTGGTGGGA
GCAGAGATAGGAGCCCACCGTAATTCGGGCGGAGAACCATGTCGACTTTTGGCTGGCGTAGAGT
ACATTGTTGGGAGGAAAAACTGTGCCATTCTAATCGAAAATGATCAGTCAATCAGTCGAAATCA
TGCTGTATTAAGAGTAAACTTTCCTGTAACCAGTTTGAGTCAAACGGATGAAATTCCTACATTA
ACAATAAAAGATAATTCTAAGTATGGAACCTTTATTAACGAAGAAAAAATGCTGAATGGCCTTT
CTTCCACTTTGAAGACAGGAGATAGAGTTACCTTTGGGGTGTTTGAAAGTAAATTCAGAGTAGA
ATACGAGCCTTTGGTTGTTTGCTCTTCTTGTTTAGATGTCTCTGGGAAAACTGTTTTAAACCAA
GCTATATTACAGCTTGGAGGACTCACTGCAAACAGCTGGACAGAAGAGTGTACTCACCTTGCCA
TGTCATCAGTCAAAGTCACCATTAAAACTATATGTGCACTCATTTGTGGACGTCCAATTGTAAA
GCCAGAATACTTTTCTGAATTTCTCAAAGCAGTTGAGTCCAAGACACAACCTCCAGAAATTGAA
AGTTTTTACCCACCCATCGATGAACCAGCTATTGGAAATAAAAGTGTCGATCTGTCCGGACGAC
GTGAAAGAAAACAAATCTTCAAAGGAAAAACATTCGTGTTTTTAAATGCCAAGCAGCATAAGAA
ACTCGGCTCGGCAGTTGTTTTCGGAGGTGGGGAAGCCAGGCTGATGGCAGAAGGAGGTGAAGAG
GAACAGAGCTTCTTCTCAGCTCCCGGAACCTGTGTTGTTGACGTAGGAATAACAAACACACAGC
TCATAATTACAGACTCCCAGAGGAAGTGGATTCATTTGATAATGGATATACTTCAAAGGCATGG
CCTCAGACCTATTCCTGAAGCAGAGATTGGATTGGCTGTTATTTTTATGACTACAGAGAGTTAC
TGTAATCCGCAGGGCCAGCCTTGTACAGAGGTAAAGACGACGACTCCAGGACCAAGCCTTTCCC
AGGGCCTGTCAGCCAATGGAAAAGTCATCCCCAGTGCGCCAATGAATATGACCACATACGTAGC
TGACACAGAATCAGAGCCAGCAGATACATGTATGTCTTTGAGTGAAAGACCAGAAGAAGTAAAG
ATCTTTGGACTCGATCAAAACTCTAGAAAGCTTTTACAAGGAACATGCAATATAAAGGAGACCT
CTAATCAAAGCTCCAATTCTAACAATGCAGCATCAAATACACTGGTTAGGGGAAAGGCCCCGAA
CTATCAGCTTTCACCAATGAAATGTCCTGCTGCAAGTAAAAATAAAGATTGGTCTTCTCAGCAG
CAGCTGAACTCCATCAAAAACTACTTCCAGCCATGCTCCAGAAAAAGGGAAAGGGATGAAGAAA
ATCCAGAACAGTCCTCATGCAAATCGTCAAGAGTGGAACTGTCTTGTTCTCTTTTAGAACAAAC
GCAACCTGCAGGACCCTCACTGTGGAAAAGCAAAGACCATGAGTCTCAGAGTGAGACTCTGGAC
AGGGCATCCAATGCCTCATCTGTGGGTGGAATAGACATAAAACCCAATGGGAAGAGTCCTGACA
GTAAGTCATTTTCCACAGAAGATCTTAGAGCAAGAAAAAGAAAAGAAGTGGATTTGTCTACAGA
AGAGGAAGTGTTGGAAGAGTTACTCAGGAGCACAAAGCCAGAGCTGGCAGTTCAAGTGAAGGTT
GAAAAGCAGGAGGCAGATGTCAGCATCAGAAAGAAGCCCAGGATGGATGCAGAGAGGAATCAGC
ACCTGAACGGTGGCCCAGTGCCAGAAAGCAACAGCGCACTTCAAGAAGATGAAACAGGAAAGAA
AGATGAGCTTCAGATAGAAGCATGGTCAACAAAACGTGAAGTATCTAATACTGACGAGCTTCCG
GACAGCAGTGAGGAGCTTCCAAGAAAACTGCTGCTGACTGAATTTAGGTCACTGGTTGTCCATA
ATAACTCTTCCAGAAATCTGTGCGTACTAAATGGTCGTGGCGAACTGAAGAATTTCAAGAAATT
CAAGAAGGCTACGTGTCCTGGAGCAGGAAAGCTTCCACACATTATTGGAGGATCAGATTTAATA
GGTCACCATGCTCGAAAGAATACTGAATTAGAAGAGTGGTTGAAACATGAAATGGAGGTACAGA
AACAACAAGCGAAAGAAGACTCTCTTGCTGATGATCTGTTTAGATATAATCCTAATGTAAAAAG
AAGATAATTGAACCTTATAAAGAAAGCTAGAGAAACACATTTCTACTTCAGACCAACTGGGATA
CGTGAATATAGTACATAGAAATTACCAATGCTTTAAGGCTTCAGTTTATTAAATAAAGCAAATT
CCATTCCTTTTGTGTGGTCTCTGGGGTAATAAATAATTTCCCCCCTCACTTTAAATGTGTTTCT
TACTAAGTAATTACCACAATCTTAGTGTCCAAAATCCTGAAACTACATTAAGGGTAAGACCAAA
GTCTCTTATCCACTAGCTGATTGATTTCCACTGTGGGTTGGGGAGTTATATCTATATACAAATA
ATAAATACAGATGTAGATGTACTTA

hide sequence

RefSeq Acc Id:

XM_039110890 ⟹ XP_038966818

RefSeq Status:

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
mRatBN7.2	5	29,459,574 - 29,493,983 (+)	NCBI

Protein Sequences


Protein RefSeqs	NP_620228	(Get FASTA)	NCBI Sequence Viewer
	XP_006237978	(Get FASTA)	NCBI Sequence Viewer
	XP_038966818	(Get FASTA)	NCBI Sequence Viewer
GenBank Protein	AAF91228	(Get FASTA)	NCBI Sequence Viewer
	AAH85700	(Get FASTA)	NCBI Sequence Viewer
	EDL98480	(Get FASTA)	NCBI Sequence Viewer
	Q9JIL9	(Get FASTA)	NCBI Sequence Viewer

Reference Sequences

RefSeq Acc Id:

NP_620228 ⟸ NM_138873

- UniProtKB:

Q9JIL9 (UniProtKB/Swiss-Prot)

- Sequence:

show sequence

MWKLLPAASAAPGEPCRLLAGVEYIVGRKNCAILIENDQSISRNHAVLRVNFPVTSLSQTDEIP
TLIIKDNSKYGTFINEEKMQNGLSSTLKTGDRVTFGVFESKFRVEYEPLVVCSSCLDVSGKTVL
NQAILQLGGLTANSWTEECTHLAMSSVKVTIKTICALICGRPIVKPEYFSEFLKAVESKTQPPE
IESFYPPIDEPAIGNKSVDLSGRRERKQIFKGKTFVFLNAKQHKKLGSAVVFGGGEARLMAEGG
EEEQSFFSAPGTCVVDVGITNTQLIITDSQRKWIHLIMDILQRHDLRPIPEAEIGLAVIFMTTE
SYCNPQGQPCTEVKTTTPGPSLSQGLSANGKVIPSAPMNMTTYVADTESEPADTCMSLSERPEE
VKIFGLDQNSRKLLQGTCNIKETSNQSSNSNNAASNTLVRGKAPNYQLSPMKCPAASKNKDWSS
QQQLNSIKNYFQPCSRKRERDEENPEQSSCKSSRVELSCSLLEQTQPAEPSLWKSKDHESQSET
LGRASNASSVGGIDIKPNGKSPDSKSFSTEDLRARKRKEVDLSTEEEVLEELLRSTKPELAVQV
KVEKQEADVSIRKKPRMDAERNQHLNGGPVPESNSALQEDETEKKDELQIEAWSTKREVSNTDE
LQDSSEELPRKLLLTEFRSLVVHNNSSRNLCPLNGRGELKNFKKFKKATCPGAGKLPHIIGGSD
LIGHHARKNTELEEWLKHEMEVQKQQAKEDSLADDLFRYNPNVKRR

hide sequence

RefSeq Acc Id:	XP_006237978 ⟸ XM_006237916
- Peptide Label:	isoform X1
- UniProtKB:	G3V766 (UniProtKB/TrEMBL)
- Sequence:	show sequence MLNGLSSTLKTGDRVTFGVFESKFRVEYEPLVVCSSCLDVSGKTVLNQAILQLGGLTANSWTEE CTHLAMSSVKVTIKTICALICGRPIVKPEYFSEFLKAVESKTQPPEIESFYPPIDEPAIGNKSV DLSGRRERKQIFKGKTFVFLNAKQHKKLGSAVVFGGGEARLMAEGGEEEQSFFSAPGTCVVDVG ITNTQLIITDSQRKWIHLIMDILQRHGLRPIPEAEIGLAVIFMTTESYCNPQGQPCTEVKTTTP GPSLSQGLSANGKVIPSAPMNMTTYVADTESEPADTCMSLSERPEEVKIFGLDQNSRKLLQGTC NIKETSNQSSNSNNAASNTLVRGKAPNYQLSPMKCPAASKNKDWSSQQQLNSIKNYFQPCSRKR ERDEENPEQSSCKSSRVELSCSLLEQTQPAGPSLWKSKDHESQSETLDRASNASSVGGIDIKPN GKSPDSKSFSTEDLRARKRKEVDLSTEEEVLEELLRSTKPELAVQVKVEKQEADVSIRKKPRMD AERNQHLNGGPVPESNSALQEDETGKKDELQIEAWSTKREVSNTDELPDSSEELPRKLLLTEFR SLVVHNNSSRNLCVLNGRGELKNFKKFKKATCPGAGKLPHIIGGSDLIGHHARKNTELEEWLKH EMEVQKQQAKEDSLADDLFRYNPNVKRR hide sequence

RefSeq Acc Id:

ENSRNOP00000012377 ⟸ ENSRNOT00000012377

RefSeq Acc Id:	XP_038966818 ⟸ XM_039110890
- Peptide Label:	isoform X2

RefSeq Acc Id:

ENSRNOP00000091774 ⟸ ENSRNOT00000111074

Protein Domains

BRCT FHA

Protein Structures

Name	Modeler	Protein Id	AA Range	Protein Structure
AF-Q9JIL9-F1-model_v2	AlphaFold	Q9JIL9	1-750	view protein structure

Transcriptome

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

Promoters

RGD ID:

13693580

Promoter ID:

EPDNEW_R4105

Type:

initiation region

Name:

Nbn_1

Description:

nibrin

SO ACC ID:

SO:0000170

Source:

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

Experiment Methods:

Single-end sequencing.

Position:

Rat Assembly	Chr	Position (strand)	Source
Rnor_6.0	5	29,622,259 - 29,622,319	EPDNEW

Additional Information

External Database Links

Database	Acc Id	Source(s)
AGR Gene	RGD:621420	AgrOrtholog
BioCyc Gene	G2FUF-41861	BioCyc
Ensembl Genes	ENSRNOG00000008580	Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Protein	ENSRNOP00000012377	ENTREZGENE
	ENSRNOP00000012377.3	UniProtKB/TrEMBL
	ENSRNOP00000091774	ENTREZGENE
	ENSRNOP00000091774.1	UniProtKB/TrEMBL
Ensembl Transcript	ENSRNOT00000012377	ENTREZGENE
	ENSRNOT00000012377.5	UniProtKB/TrEMBL
	ENSRNOT00000111074	ENTREZGENE
	ENSRNOT00000111074.1	UniProtKB/TrEMBL
Gene3D-CATH	2.60.200.20	UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
	3.40.50.10190	UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
	3.40.50.10980	UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
IMAGE_CLONE	IMAGE:7130978	IMAGE-MGC_LOAD
InterPro	BRCT_dom_sf	UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
	DNA-repair_Nbs1_C	UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
	FHA_dom	UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
	Nibrin-rel	UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
	Nibrin_BRCT2	UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
	Nibrin_BRCT2_sf	UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
	Nibrin_met	UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
	SMAD_FHA_dom_sf	UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
KEGG Report	rno:85482	UniProtKB/Swiss-Prot
MGC_CLONE	MGC:93174	IMAGE-MGC_LOAD
NCBI Gene	85482	ENTREZGENE
PANTHER	NIBRIN	UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
	PTHR12162	UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Pfam	FHA	UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
	Nbs1_C	UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
	NIBRIN_BRCT_II	UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PhenoGen	Nbn	PhenoGen
PIRSF	Nibrin_animal	UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PROSITE	FHA_DOMAIN	UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
SMART	FHA	UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
	Nbs1_C	UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Superfamily-SCOP	SSF49879	UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
	SSF52113	UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
UniProt	A0A8I6AGS6_RAT	UniProtKB/TrEMBL
	G3V766	ENTREZGENE, UniProtKB/TrEMBL
	NBN_RAT	UniProtKB/Swiss-Prot, ENTREZGENE
UniProt Secondary	Q5RKL2	UniProtKB/Swiss-Prot

Nomenclature History

Date	Current Symbol	Current Name	Previous Symbol	Previous Name	Description	Reference	Status
2005-01-20	Nbn	nibrin			Symbol and Name status set to approved	1299863	APPROVED
2002-08-07	Nbn	nibrin			Symbol and Name status set to provisional	70820	PROVISIONAL

RGD Curation Notes

Note Type	Note	Reference
gene_expression	expressed in heart, peak expression at postnatal day 10	68816

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

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

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

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

Imported Disease Annotations - ClinVar

Imported Disease Annotations - CTD

Imported Disease Annotations - MGI

Imported Disease Annotations - OMIM

RGD Manual Annotations

Imported Annotations - KEGG (archival)

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Imported Disease Annotations - ClinVar

Imported Disease Annotations - CTD

Imported Disease Annotations - MGI

Imported Disease Annotations - OMIM

RGD Manual Annotations

Imported Annotations - KEGG (archival)