Ngb (neuroglobin) - Rat Genome Database

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Gene: Ngb (neuroglobin) Rattus norvegicus
Analyze
Symbol: Ngb
Name: neuroglobin
RGD ID: 621461
Description: Predicted to enable oxygen carrier activity. Involved in several processes, including negative regulation of hydrogen peroxide-induced cell death; response to iron ion; and visual perception. Located in mitochondrion; neuron projection; and perikaryon. Used to study transient cerebral ischemia. Biomarker of Alzheimer's disease; encephalitis; retinal ischemia; and transient cerebral ischemia. Orthologous to human NGB (neuroglobin); INTERACTS WITH 6-propyl-2-thiouracil; ammonium chloride; barium sulfate.
Type: protein-coding
RefSeq Status: VALIDATED
Also known as: Glnh; globin h
RGD Orthologs
Human
Mouse
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Genes
More Info more info ...
Latest Assembly: Rnor_6.0 - RGSC Genome Assembly v6.0
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.26106,744,378 - 106,749,830 (-)NCBImRatBN7.2
Rnor_6.0 Ensembl6111,126,261 - 111,132,320 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_6.06111,126,259 - 111,131,699 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_5.06120,412,241 - 120,417,508 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.46111,231,188 - 111,236,255 (-)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.16111,234,718 - 111,239,786 (-)NCBI
Celera6104,565,839 - 104,571,131 (-)NCBICelera
Cytogenetic Map6q31NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Disease Annotations     Click to see Annotation Detail View

Gene Ontology Annotations     Click to see Annotation Detail View

Cellular Component

Molecular Function

References

References - curated
1. Hundahl C, etal., Brain Res. 2006 Apr 26;1085(1):19-27. Epub 2006 May 2.
2. Hundahl CA, etal., Neuroendocrinology. 2008;88(3):183-98. doi: 10.1159/000135617. Epub 2008 May 29.
3. Lechauve C, etal., Biochim Biophys Acta. 2012 Dec;1823(12):2261-73. doi: 10.1016/j.bbamcr.2012.09.009. Epub 2012 Oct 2.
4. Li L, etal., Mol Neurobiol. 2014 Feb;49(1):149-62. doi: 10.1007/s12035-013-8506-7. Epub 2013 Aug 1.
5. Li RC, etal., Brain Res. 2006 Jun 22;1096(1):173-9. Epub 2006 Jun 5.
6. Li RC, etal., Brain Res. 2008 Jan 23;1190:159-66. Epub 2007 Nov 22.
7. Li WD, etal., Cell Mol Neurobiol. 2014 Mar;34(2):247-55. doi: 10.1007/s10571-013-0008-7. Epub 2013 Nov 27.
8. Liu C, etal., Zhonghua Shao Shang Za Zhi. 2009 Jun;25(3):222-6.
9. Melgarejo-Gutierrez M, etal., Neuroreport. 2013 Feb 13;24(3):120-5. doi: 10.1097/WNR.0b013e32835d4b74.
10. MGD data from the GO Consortium
11. NCBI rat LocusLink and RefSeq merged data July 26, 2002
12. Ramser K, etal., Appl Spectrosc. 2012 Dec;66(12):1454-60. doi: 10.1366/12-06670.
13. RGD automated data pipeline
14. RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
15. RGD automated import pipeline for gene-chemical interactions
16. RGD comprehensive gene curation
17. Shang A, etal., Neurol Sci. 2012 Jun;33(3):551-8. doi: 10.1007/s10072-011-0772-4. Epub 2011 Sep 14.
18. Shi SY, etal., Int J Ophthalmol. 2011;4(4):393-5. doi: 10.3980/j.issn.2222-3959.2011.04.14. Epub 2011 Aug 18.
19. Sun Y, etal., Neurobiol Aging. 2005 Feb;26(2):275-8.
20. Sun Y, etal., Proc Natl Acad Sci U S A. 2003 Mar 18;100(6):3497-500. Epub 2003 Mar 5.
21. Xie YN, etal., Zhen Ci Yan Jiu. 2012 Oct;37(5):380-4.
22. Zara S, etal., Gerontology. 2013;59(3):250-60. doi: 10.1159/000346445. Epub 2013 Feb 20.
23. Zhang C, etal., Biochem Biophys Res Commun 2002 Feb 8;290(5):1411-9.
24. Zhang CG, etal., Yi Chuan Xue Bao 2001 Nov;28(11):997-1001.
Additional References at PubMed
PMID:8889548   PMID:11029004   PMID:15193759   PMID:16683692   PMID:16796995   PMID:17560688   PMID:17576199   PMID:18451642   PMID:19327369   PMID:19536481   PMID:20187147   PMID:20211612  
PMID:20230802   PMID:20476562   PMID:21054965   PMID:21767627   PMID:22009023   PMID:22472608   PMID:22664218   PMID:22887765   PMID:23180278   PMID:23639750   PMID:23673310   PMID:24145836  
PMID:24491879   PMID:24747803   PMID:25557405   PMID:25636685   PMID:26400308   PMID:26646387   PMID:26983282   PMID:28359933   PMID:28829495   PMID:29802248   PMID:32205448  


Genomics

Comparative Map Data
Ngb
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.26106,744,378 - 106,749,830 (-)NCBImRatBN7.2
Rnor_6.0 Ensembl6111,126,261 - 111,132,320 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_6.06111,126,259 - 111,131,699 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_5.06120,412,241 - 120,417,508 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.46111,231,188 - 111,236,255 (-)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.16111,234,718 - 111,239,786 (-)NCBI
Celera6104,565,839 - 104,571,131 (-)NCBICelera
Cytogenetic Map6q31NCBI
NGB
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38.p13 Ensembl1477,265,483 - 77,271,206 (-)EnsemblGRCh38hg38GRCh38
GRCh381477,265,483 - 77,271,206 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh371477,731,826 - 77,737,549 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 361476,801,587 - 76,807,408 (-)NCBINCBI36hg18NCBI36
Build 341476,801,580 - 76,807,408NCBI
Celera1457,770,473 - 57,776,215 (-)NCBI
Cytogenetic Map14q24.3NCBI
HuRef1457,898,325 - 57,904,062 (-)NCBIHuRef
CHM1_11477,671,361 - 77,677,104 (-)NCBICHM1_1
Ngb
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391287,144,305 - 87,149,313 (-)NCBIGRCm39mm39
GRCm39 Ensembl1287,144,305 - 87,149,313 (-)Ensembl
GRCm381287,097,531 - 87,102,539 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1287,097,531 - 87,102,539 (-)EnsemblGRCm38mm10GRCm38
MGSCv371288,438,481 - 88,443,489 (-)NCBIGRCm37mm9NCBIm37
MGSCv361287,986,634 - 87,991,642 (-)NCBImm8
Celera1288,562,002 - 88,567,162 (-)NCBICelera
Cytogenetic Map12D2NCBI
Ngb
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049554381,170,888 - 1,175,978 (-)EnsemblChiLan1.0
ChiLan1.0NW_0049554381,170,888 - 1,175,978 (-)NCBIChiLan1.0ChiLan1.0
NGB
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
PanPan1.11477,020,274 - 77,025,983 (-)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl1477,020,274 - 77,025,983 (-)Ensemblpanpan1.1panPan2
Mhudiblu_PPA_v01457,818,491 - 57,824,196 (-)NCBIMhudiblu_PPA_v0panPan3
NGB
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1850,081,960 - 50,086,071 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl850,081,960 - 50,085,435 (-)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha849,769,803 - 49,773,792 (-)NCBI
ROS_Cfam_1.0850,314,590 - 50,325,270 (-)NCBI
UMICH_Zoey_3.1849,978,294 - 49,982,287 (-)NCBI
UNSW_CanFamBas_1.0850,001,322 - 50,005,311 (-)NCBI
UU_Cfam_GSD_1.0850,399,520 - 50,403,524 (-)NCBI
Ngb
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440864025,969,328 - 25,974,879 (+)NCBI
SpeTri2.0NW_0049364886,094,089 - 6,098,876 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
NGB
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl7100,340,939 - 100,346,438 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.17100,341,974 - 100,346,263 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.27106,610,972 - 106,615,261 (+)NCBISscrofa10.2Sscrofa10.2susScr3
NGB
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.12454,510,877 - 54,518,535 (-)NCBI
Vero_WHO_p1.0NW_02366605342,711,096 - 42,716,772 (-)NCBI
Ngb
(Heterocephalus glaber - naked mole-rat)
Naked Mole-rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla 1.0NW_00462473424,640,389 - 24,645,041 (+)NCBI

Position Markers
RH143985  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.26106,744,474 - 106,744,593 (+)MAPPERmRatBN7.2
Rnor_6.06111,126,356 - 111,126,474NCBIRnor6.0
Rnor_5.06120,412,338 - 120,412,456UniSTSRnor5.0
RGSC_v3.46111,231,284 - 111,231,402UniSTSRGSC3.4
Celera6104,565,936 - 104,566,054UniSTS
RH 3.4 Map6743.6UniSTS
Cytogenetic Map6q31UniSTS
NGB  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.26106,746,842 - 106,747,639 (+)MAPPERmRatBN7.2
Rnor_6.06111,128,724 - 111,129,520NCBIRnor6.0
Rnor_5.06120,414,706 - 120,415,502UniSTSRnor5.0
RGSC_v3.46111,233,652 - 111,234,448UniSTSRGSC3.4
Celera6104,568,304 - 104,569,100UniSTS
Cytogenetic Map6q31UniSTS


QTLs in Region (Rnor_6.0)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
1576309Emca7Estrogen-induced mammary cancer QTL 74mammary gland integrity trait (VT:0010552)mammary tumor number (CMO:0000343)62537030111715717Rat
4145119Mcs25Mammary carcinoma susceptibility QTL 250.0001mammary gland integrity trait (VT:0010552)ratio of deaths to total study population during a period of time (CMO:0001023)67009971115379601Rat
12801471Schws9Schwannoma susceptibility QTL 9nervous system integrity trait (VT:0010566)percentage of study population developing trigeminal nerve neurilemmomas during a period of time (CMO:0002017)666129520111129520Rat
731173Uae22Urinary albumin excretion QTL 2210.1urine albumin amount (VT:0002871)urine albumin excretion rate (CMO:0000757)668781170147991367Rat
2290393Uae37Urinary albumin excretion QTL 370.0001urine albumin amount (VT:0002871)urine albumin excretion rate (CMO:0000757)668781170147991367Rat
1641904Alcrsp4Alcohol response QTL 4response to alcohol trait (VT:0010489)duration of loss of righting reflex (CMO:0002289)671206251116206251Rat
1300075Glom7Glomerulus QTL 75.60.0000002kidney glomerulus morphology trait (VT:0005325)count of superficial glomeruli not directly contacting the kidney surface (CMO:0001002)675449871120449871Rat
1331789Rf37Renal function QTL 373.224kidney blood vessel physiology trait (VT:0100012)absolute change in renal vascular resistance (CMO:0001900)675623277120276465Rat
70196BpQTLcluster7Blood pressure QTL cluster 76.82arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)675623277120623277Rat
724536Uae7Urinary albumin excretion QTL 73.5urine albumin amount (VT:0002871)urine albumin level (CMO:0000130)675623277136143011Rat
1331799Bp211Blood pressure QTL 2113.66407arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)675623277136426962Rat
1581550Pur8Proteinuria QTL 8total urine protein amount (VT:0000032)urine total protein excretion rate (CMO:0000756)675623393136142742Rat
1581563Uae33Urinary albumin excretion QTL 33urine albumin amount (VT:0002871)urine albumin excretion rate (CMO:0000757)675623393136142742Rat
724524Uae2Urinary albumin excretion QTL 22.70.0005urine albumin amount (VT:0002871)urine albumin excretion rate (CMO:0000757)676902247114203334Rat
737827Hcar11Hepatocarcinoma resistance QTL 114.4liver integrity trait (VT:0010547)liver tumorous lesion number (CMO:0001068)686422697115379601Rat
1576302Schws4Schwannoma susceptibility QTL 40.0078nervous system integrity trait (VT:0010566)percentage of study population developing trigeminal nerve neurilemmomas during a period of time (CMO:0002017)687418448111129520Rat
738034Anxrr5Anxiety related response QTL 55.9exploratory behavior trait (VT:0010471)percentage of entries into a discrete space in an experimental apparatus (CMO:0000961)688507712133507712Rat
724513Uae14Urinary albumin excretion QTL 146.5urine albumin amount (VT:0002871)urine albumin excretion rate (CMO:0000757)688996335139410483Rat
10054138Gmadr3Adrenal mass QTL 33.680.00045adrenal gland mass (VT:0010420)both adrenal glands wet weight (CMO:0000164)689631358134631358Rat
10054123Srcrt6Stress Responsive Cort QTL 62.50.0043blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)689631358134631358Rat
1300076Glom8Glomerulus QTL 870.000000009kidney glomerulus morphology trait (VT:0005325)count of superficial glomeruli directly contacting the kidney surface (CMO:0001001)691703409136703409Rat
2303624Vencon5Ventilatory control QTL 54.45respiration trait (VT:0001943)minute ventilation (CMO:0000132)692879510137879510Rat
1331722Thshl1Thyroid stimulating hormone level QTL 111.70.0001blood thyroid-stimulating hormone amount (VT:0005119)serum thyroid stimulating hormone level (CMO:0001248)693706176111134673Rat
1331725Bp212Blood pressure QTL 2123.52475arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)697949772133849286Rat
12801411Schws8Schwannoma susceptibility QTL 8nervous system integrity trait (VT:0010566)percentage of study population developing trigeminal nerve neurilemmomas during a period of time (CMO:0002017)699273921144273921Rat
61414Pia3Pristane induced arthritis QTL 34.5joint integrity trait (VT:0010548)post-insult time to onset of experimental arthritis (CMO:0001450)699273921144792678Rat
8552796Vie3Viral induced encephalitis QTL 32.6brain integrity trait (VT:0010579)encephalitis incidence/prevalence measurement (CMO:0002361)6101207574147991367Rat
1358355Srcrt4Stress Responsive Cort QTL 46.39blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)6104363890147991367Rat
2313399Anxrr28Anxiety related response QTL 28aggression-related behavior trait (VT:0015014)tameness/aggressiveness composite score (CMO:0002136)6104381930138066274Rat
1331797Bp213Blood pressure QTL 2133.291arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)6108154445133849286Rat

miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:480
Count of miRNA genes:229
Interacting mature miRNAs:276
Transcripts:ENSRNOT00000016057
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 1
Low 3 13 5 61 22 36 11
Below cutoff 39 24 21 13 21 7 10 12 13 5 7

Sequence


Reference Sequences
RefSeq Acc Id: ENSRNOT00000016057   ⟹   ENSRNOP00000016057
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 Ensembl6111,126,261 - 111,132,320 (-)Ensembl
RefSeq Acc Id: ENSRNOT00000081727   ⟹   ENSRNOP00000073109
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 Ensembl6111,127,246 - 111,131,271 (-)Ensembl
RefSeq Acc Id: ENSRNOT00000085112   ⟹   ENSRNOP00000072994
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 Ensembl6111,127,701 - 111,128,735 (-)Ensembl
RefSeq Acc Id: NM_033359   ⟹   NP_203523
RefSeq Status: VALIDATED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.26106,744,378 - 106,749,830 (-)NCBI
Rnor_6.06111,126,259 - 111,131,699 (-)NCBI
Rnor_5.06120,412,241 - 120,417,508 (-)NCBI
RGSC_v3.46111,231,188 - 111,236,255 (-)RGD
Celera6104,565,839 - 104,571,131 (-)NCBI
Sequence:
Reference Sequences
RefSeq Acc Id: NP_203523   ⟸   NM_033359
- UniProtKB: Q99JA8 (UniProtKB/Swiss-Prot)
- Sequence:
RefSeq Acc Id: ENSRNOP00000016057   ⟸   ENSRNOT00000016057
RefSeq Acc Id: ENSRNOP00000072994   ⟸   ENSRNOT00000085112
RefSeq Acc Id: ENSRNOP00000073109   ⟸   ENSRNOT00000081727
Protein Domains
GLOBIN

Transcriptome

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


Strain Variation

Strain Sequence Variants (Rnor 6.0)
ACI/EurMcwi (MCW)
Visual CSV TAB Printer
Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
ACI/EurMcwi (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
ACI/N (MCW)
Visual CSV TAB Printer
Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
BBDP/Wor (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
BN/SsN (MCW)
Visual CSV TAB Printer
Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
Buf/N (MCW)
Visual CSV TAB Printer
Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
COP/CrCrl (MCW & UW)
Visual CSV TAB Printer
Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
University of Wisconsin (Dr. James Shull)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Charles River Laboratories
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob) and UW Madison (Dr. James Shull)
F344/NCrl (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
F344/NRrrc (MCW)
Visual CSV TAB Printer
Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
FHH/EurMcwi (MCW)
Visual CSV TAB Printer
Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
FHH/EurMcwi (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
FHL/EurMcwi (MCW)
Visual CSV TAB Printer
Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
FHL/EurMcwi (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
GH/OmrMcwi (MCW)
Visual CSV TAB Printer
Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
GK/Ox (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LE/Stm (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LEW/Crl (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LEW/NCrlBR (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LH/MavRrrc (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LL/MavRrrc (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LN/MavRrrc (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
M520/N (MCW)
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Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
MHS/Gib (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
MNS/Gib (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
MR/N (MCW)
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Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
SBH/Ygl (MCW)
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Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: SBH/Ygl sequenced by MCW
SBH/Ygl (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SBN/Ygl (MCW)
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Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: SBN/Ygl sequenced by MCW
SBN/Ygl (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SHR/NHsd (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SHRSP/Gcrc (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SR/JrHsd (MCW)
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Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Harlan Laboratories
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
SR/JrHsd (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SS/Jr (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SS/JrHsdMcwi (MCW)
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Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
SS/JrHsdMcwi (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
WAG/Rij (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
WKY/Gcrc (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
WKY/N (MCW)
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Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
WKY/NCrl (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
WKY/NHsd (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
WN/N (MCW)
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Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin

Additional Information

Database Acc Id Source(s)
AGR Gene RGD:621461 AgrOrtholog
Ensembl Genes ENSRNOG00000011719 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Protein ENSRNOP00000016057 ENTREZGENE, UniProtKB/TrEMBL
  ENSRNOP00000072994 UniProtKB/TrEMBL
  ENSRNOP00000073109 UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000016057 ENTREZGENE, UniProtKB/TrEMBL
  ENSRNOT00000081727 UniProtKB/TrEMBL
  ENSRNOT00000085112 UniProtKB/TrEMBL
Gene3D-CATH 1.10.490.10 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
InterPro Globin UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Globin-like_sf UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Globin/Proto UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
KEGG Report rno:85382 UniProtKB/Swiss-Prot
NCBI Gene 85382 ENTREZGENE
Pfam Globin UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PhenoGen Ngb PhenoGen
PROSITE GLOBIN UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Superfamily-SCOP SSF46458 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
UniProt A0A0G2JSL1_RAT UniProtKB/TrEMBL
  A0A0G2K4D1_RAT UniProtKB/TrEMBL
  A0A0G2K4N3_RAT UniProtKB/TrEMBL
  NGB_RAT UniProtKB/Swiss-Prot, ENTREZGENE
UniProt Secondary Q8VH38 UniProtKB/Swiss-Prot
  Q99N62 UniProtKB/Swiss-Prot


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2004-09-10 Ngb  neuroglobin      Symbol and Name status set to approved 1299863 APPROVED
2002-08-07 Ngb  neuroglobin      Symbol and Name status set to provisional 70820 PROVISIONAL

RGD Curation Notes
Note Type Note Reference
gene_expression expressed in cerebral cortex, hippocampus, thalamus, hypothalamus, olfactory bulb, and cerebellum 625434
gene_protein 151 amino acid protein 729218