Hba-a3 (hemoglobin alpha, adult chain 3) - Rat Genome Database

Send us a Message
Submit Data |  Help |  Video Tutorials |  News |  Publications |  Download |  REST API |  Citing RGD |  Contact   
Search RGD Grant Resources Citing RGD About Us Contact Us
Genes Variants Community Projects QTLs Strains Markers Genome Information Ontologies Cell Lines References Download Submit Data
OntoMate (Literature Search) JBrowse (Genome Browser) Synteny Browser (VCMap) Variant Visualizer Multi-Ontology Enrichment (MOET) Gene-Ortholog Location Finder (GOLF) InterViewer (Protein-Protein Interactions) PhenoMiner (Quatitative Phenotypes) Gene Annotator OLGA (Gene List Generator) AllianceMine GViewer (Genome Viewer)
Aging & Age-Related Disease Behavioral & Substance Use Disorder Cancer & Neoplastic Disease Cardiovascular Disease Coronavirus Disease Developmental Disease Diabetes Hematologic Disease Immune & Inflammatory Disease Infectious Disease Liver Disease Neurological Disease Obesity & Metabolic Syndrome Renal Disease Respiratory Disease Sensory Organ Disease
Find Models Genetic Models Autism Models Rat PhenoMiner (Quantitative Phenotypes) Chinchilla PhenoMiner Expected Ranges (Quantitative Phenotype) PhenoMiner Term Comparison Hybrid Rat Diversity Panel Phenotypes Phenotypes in Other Animal Models Animal Husbandry Strain Medical Records Phylogenetics Strain Availability Calendar Rats 101 Submissions Photo Archive
Pathways
Rat Community Forum Directory of Rat Laboratories Video Tutorials News RGD Publications RGD Presentations Archive Nomenclature Guidelines Resource Links Laboratory Resources Employment Resources
Advanced Search (OLGA)
Gene: Hba-a3 (hemoglobin alpha, adult chain 3) Rattus norvegicus
Analyze
Symbol: Hba-a3
Name: hemoglobin alpha, adult chain 3
RGD ID: 1359209
Description: Human ortholog(s) of this gene implicated in Heinz body anemia; alpha thalassemia; familial erythrocytosis 7; and hemoglobin H disease. Orthologous to human HBA2 (hemoglobin subunit alpha 2); INTERACTS WITH 17beta-estradiol; 2,3,7,8-Tetrachlorodibenzofuran; 3,3',4,4',5-pentachlorobiphenyl.
Type: protein-coding
RefSeq Status: VALIDATED
Previously known as: alpha-globin; Glnc1; GloA; globin c1; globin, alpha; Hba-a1; hemoglobin alpha, adult chain 1; LOC287167
RGD Orthologs
Human
Dog
Alliance Orthologs
More Info more info ...
Latest Assembly: GRCr8 - GRCr8 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr81015,816,099 - 15,816,943 (-)NCBIGRCr8GRCr8GRCr8
GRCr8 Ensembl1015,816,096 - 15,817,167 (-)EnsemblGRCr8
mRatBN7.21015,311,637 - 15,312,481 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1015,311,634 - 15,312,481 (-)EnsemblmRatBN7.2
UTH_Rnor_WKY_Bbb_1.01015,039,603 - 15,040,447 (-)NCBIUTH_Rnor_WKY_Bbb_1.0UTH_Rnor_WKY_Bbb_1.0
Rnor_6.01015,577,249 - 15,577,977 (-)NCBIRnor_6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1015,577,249 - 15,577,977 (-)Ensemblrn6Rnor6.0
Rnor_5.01015,472,343 - 15,473,071 (-)NCBIRnor_5.0Rnor_5.0rn5
RGSC_v3.41015,558,815 - 15,559,543 (-)NCBIRGSC_v3.4RGSC_v3.4rn4
Celera1014,979,302 - 14,980,030 (-)NCBICelera
RGSC_v3.11015,559,862 - 15,560,591 (-)NCBI
Cytogenetic Map10q12NCBI
JBrowse:




Gene Ontology Annotations     Click to see Annotation Detail View

Biological Process

Cellular Component

Molecular Function

References

References - curated
# Reference Title Reference Citation
1. Identification of the molecular genetic defect of patients with methemoglobin M-Kankakee (M-Iwate), alpha87 (F8) His --> Tyr: evidence for an electrostatic model of alphaM hemoglobin assembly. Ameri A, etal., Blood. 1999 Sep 1;94(5):1825-6.
2. Increased oxygen affinity with normal heterotropic effects in hemoglobin Loire [alpha 88(F9)Ala----Ser]. Baklouti F, etal., Eur J Biochem. 1988 Nov 1;177(2):307-12.
3. Three cysteine residues in the alpha chain of rat haemoglobin (albino Rattus norvegicus): 13 (A 11), 104 (G 11) and 111 (G 18). Chua CG and Carrell RW, Biochim Biophys Acta. 1974 Oct 9;365(2):328-34.
4. Hemopressin: a novel bioactive peptide derived from the alpha1-chain of hemoglobin. Dale CS, etal., Mem Inst Oswaldo Cruz. 2005 Mar;100 Suppl 1:105-6. Epub 2005 Jun 14.
5. Hemoglobin and its derived peptides may play a role in the antibacterial mechanism of the vagina. Deng L, etal., Hum Reprod. 2009 Jan;24(1):211-8. doi: 10.1093/humrep/den318. Epub 2008 Sep 10.
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. Hb Luxembourg [alpha 24(B5) Tyr----His]: a new unstable variant. Groff P, etal., Hemoglobin. 1989;13(5):429-36.
8. Structural, functional and conformational properties of rat hemoglobins. John ME Eur J Biochem. 1982 May 17;124(2):305-10.
9. Evidence of hemoglobin binding to arsenic as a basis for the accumulation of arsenic in rat blood. Lu M, etal., Chem Res Toxicol. 2004 Dec;17(12):1733-42.
10. Hyperunstable hemoglobin Toyama [alpha 2 136(H19)Leu----Arg beta 2]: detection and identification by in vitro biosynthesis with radioactive amino acids. Ohba Y, etal., Hemoglobin. 1987;11(6):539-56.
11. OMIM Disease Annotation Pipeline OMIM Disease Annotation Pipeline
12. Glutamine synthetase, hemoglobin alpha-chain, and macrophage migration inhibitory factor binding to amyloid beta-protein: their identification in rat brain by a novel affinity chromatography and in Alzheimer's disease brain by immunoprecipitation. Oyama R, etal., Biochim Biophys Acta. 2000 Jun 15;1479(1-2):91-102.
13. Initiation codon mutation as a cause of alpha thalassemia. Pirastu M, etal., J Biol Chem. 1984 Oct 25;259(20):12315-7.
14. GOA pipeline RGD automated data pipeline
15. ClinVar Automated Import and Annotation Pipeline RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
16. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
17. Hb Aghia Sophia [alpha62(E11)Val-->0 (alpha1)], an "in-frame" deletion causing alpha-thalassemia. Traeger-Synodinos J, etal., Hemoglobin. 1999 Nov;23(4):317-24.
Additional References at PubMed
PMID:8292032   PMID:8706699   PMID:16765986   PMID:18245844   PMID:19740759   PMID:21805676   PMID:22060312  


Genomics

Comparative Map Data
Hba-a3
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr81015,816,099 - 15,816,943 (-)NCBIGRCr8GRCr8GRCr8
GRCr8 Ensembl1015,816,096 - 15,817,167 (-)EnsemblGRCr8
mRatBN7.21015,311,637 - 15,312,481 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1015,311,634 - 15,312,481 (-)EnsemblmRatBN7.2
UTH_Rnor_WKY_Bbb_1.01015,039,603 - 15,040,447 (-)NCBIUTH_Rnor_WKY_Bbb_1.0UTH_Rnor_WKY_Bbb_1.0
Rnor_6.01015,577,249 - 15,577,977 (-)NCBIRnor_6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1015,577,249 - 15,577,977 (-)Ensemblrn6Rnor6.0
Rnor_5.01015,472,343 - 15,473,071 (-)NCBIRnor_5.0Rnor_5.0rn5
RGSC_v3.41015,558,815 - 15,559,543 (-)NCBIRGSC_v3.4RGSC_v3.4rn4
Celera1014,979,302 - 14,980,030 (-)NCBICelera
RGSC_v3.11015,559,862 - 15,560,591 (-)NCBI
Cytogenetic Map10q12NCBI
HBA2
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh3816172,876 - 173,710 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl16172,876 - 173,710 (+)Ensemblhg38GRCh38
GRCh3716222,875 - 223,709 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 3616162,875 - 163,708 (+)NCBIBuild 36Build 36hg18NCBI36
Build 3416162,874 - 163,705NCBI
Celera16426,165 - 427,036 (+)NCBICelera
Cytogenetic Map16p13.3NCBI
HuRef16140,887 - 141,750 (+)NCBIHuRef
CHM1_116222,852 - 223,715 (+)NCBICHM1_1
T2T-CHM13v2.016166,917 - 167,751 (+)NCBIT2T-CHM13v2.0
LOC100855558
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1640,328,053 - 40,329,002 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha641,591,692 - 41,593,018 (-)NCBIDog10K_Boxer_TashaDog10K_Boxer_Tasha
ROS_Cfam_1.0640,671,209 - 40,672,537 (-)NCBIROS_Cfam_1.0ROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl640,577,773 - 40,672,545 (-)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.1640,359,320 - 40,360,638 (-)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.0640,320,283 - 40,321,596 (-)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0640,798,910 - 40,800,239 (-)NCBIUU_Cfam_GSD_1.0UU_Cfam_GSD_1.0

Variants

.
Variants in Hba-a3
1 total Variants
miRNA Target Status (No longer updated)

Predicted Target Of
Summary Value
Count of predictions:34
Count of miRNA genes:32
Interacting mature miRNAs:33
Transcripts:ENSRNOT00000052292
Prediction methods:Miranda, Rnahybrid
Result types:miRGate_prediction

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

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


QTLs in Region (GRCr8)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
2313095Bss62Bone structure and strength QTL 621.50.0001tibia size trait (VT:0100001)tibia midshaft cross-sectional area (CMO:0001717)10589381150893811Rat
631660Hcar1Hepatocarcinoma resistance QTL 13.40.0001liver integrity trait (VT:0010547)volume of individual liver tumorous lesion (CMO:0001078)10666111835509383Rat
631564Apr3Acute phase response QTL 33.9blood interleukin-6 amount (VT:0008595)plasma interleukin-6 level (CMO:0001927)101577675460776754Rat
8662860Vetf10Vascular elastic tissue fragility QTL 10artery integrity trait (VT:0010639)number of ruptures of the internal elastic lamina of the abdominal aorta and iliac arteries (CMO:0002562)10666092373950353Rat
2313066Bss63Bone structure and strength QTL 631.40.0001tibia strength trait (VT:1000284)bone polar moment of inertia (CMO:0001558)10589381150893811Rat
631554Bp133Blood pressure QTL 1330.005arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)10125055464349221Rat
2313064Bmd71Bone mineral density QTL 710.90.0001tibia mineral mass (VT:1000283)compact volumetric bone mineral density (CMO:0001730)10589381150893811Rat
2301967Cm73Cardiac mass QTL 734.55heart left ventricle mass (VT:0007031)heart left ventricle weight to body weight ratio (CMO:0000530)101499153586964295Rat
631268Cia21Collagen induced arthritis QTL 213.1joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)1014991535107713808Rat
70223Bp57Blood pressure QTL 575arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)101465354159653541Rat
1354587Kidm21Kidney mass QTL 213.3kidney mass (VT:0002707)right kidney wet weight (CMO:0000082)101553301273695498Rat
1578761Stresp21Stress response QTL 213.3thymus mass (VT:0004954)thymus wet weight (CMO:0000855)10687714251877142Rat
2293680Bss40Bone structure and strength QTL 405.660.0001femur strength trait (VT:0010010)femur total energy absorbed before break (CMO:0001677)10135730538Rat
7387235Uae41Urinary albumin excretion QTL 415.260.1874urine albumin amount (VT:0002871)urine albumin excretion rate (CMO:0000757)10130004247Rat
2313104Bss61Bone structure and strength QTL 610.90.0001tibia area (VT:1000281)tibia midshaft cross-sectional area (CMO:0001717)10589381150893811Rat
61427Cia16Collagen induced arthritis QTL 163.2joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)10686461896620484Rat
10401803Kidm50Kidney mass QTL 50kidney mass (VT:0002707)both kidneys wet weight (CMO:0000085)1092219745922197Rat
2316949Gluco60Glucose level QTL 603.7blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)1014991535107556066Rat
737820Alc9Alcohol consumption QTL 92.2consumption behavior trait (VT:0002069)ethanol drink intake rate (CMO:0001407)101576223019737486Rat
2317754Glom25Glomerulus QTL 253.5urine protein amount (VT:0005160)urine protein level (CMO:0000591)10210370847103708Rat
2313081Bss64Bone structure and strength QTL 641.30.0001tibia strength trait (VT:1000284)tibia total energy absorbed before break (CMO:0001736)10589381150893811Rat
631828Alc5Alcohol consumption QTL 52.4consumption behavior trait (VT:0002069)ethanol drink intake rate (CMO:0001407)10117749933Rat
634327Hc4Hypercalciuria QTL 42.4urine calcium amount (VT:0002985)urine calcium excretion rate (CMO:0000763)10138832698Rat


Expression

RNA-SEQ Expression

alimentary part of gastrointestinal system
appendage
circulatory system
ectoderm
endocrine system
endoderm
exocrine system
hemolymphoid system
hepatobiliary system
integumental system
mesenchyme
mesoderm
musculoskeletal system
nervous system
renal system
reproductive system
respiratory system
sensory system
visual system
9 9 75 168 87 86 58 153 58 6 442 270 21 141 101 104 28 13 13

Sequence


Ensembl Acc Id: ENSRNOT00000048977   ⟹   ENSRNOP00000044081
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 Ensembl1015,828,377 - 15,829,141 (-)Ensembl
mRatBN7.2 Ensembl1015,311,634 - 15,312,481 (-)Ensembl
Ensembl Acc Id: ENSRNOT00000052292   ⟹   ENSRNOP00000041451
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 Ensembl1015,816,096 - 15,817,167 (-)Ensembl
Rnor_6.0 Ensembl1015,577,249 - 15,577,977 (-)Ensembl
RefSeq Acc Id: NM_001013853   ⟹   NP_001013875
RefSeq Status: VALIDATED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81015,816,099 - 15,816,943 (-)NCBI
mRatBN7.21015,311,637 - 15,312,481 (-)NCBI
Rnor_6.01015,577,249 - 15,577,977 (-)NCBI
Rnor_5.01015,472,343 - 15,473,071 (-)NCBI
RGSC_v3.41015,558,815 - 15,559,543 (-)RGD
Celera1014,979,302 - 14,980,030 (-)RGD
Sequence:
Protein Sequences
Protein RefSeqs NP_001013875 (Get FASTA)   NCBI Sequence Viewer  
GenBank Protein AAB40623 (Get FASTA)   NCBI Sequence Viewer  
  EDM04007 (Get FASTA)   NCBI Sequence Viewer  
Ensembl Protein ENSRNOP00000041451.4
  ENSRNOP00000044081.3
GenBank Protein SAI82215 (Get FASTA)   NCBI Sequence Viewer  
RefSeq Acc Id: NP_001013875   ⟸   NM_001013853
- UniProtKB: Q63910 (UniProtKB/TrEMBL),   A0A0G2JSV6 (UniProtKB/TrEMBL),   A0A9K3Y8D0 (UniProtKB/TrEMBL)
- Sequence:
Ensembl Acc Id: ENSRNOP00000041451   ⟸   ENSRNOT00000052292
Ensembl Acc Id: ENSRNOP00000044081   ⟸   ENSRNOT00000048977
Protein Domains
GLOBIN

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-Q63910-F1-model_v2 AlphaFold Q63910 1-142 view protein structure

Transcriptome

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

Promoters
RGD ID:13697073
Promoter ID:EPDNEW_R7598
Type:multiple initiation site
Name:Hba-a3_1
Description:hemoglobin alpha, adult chain 3
SO ACC ID:SO:0000170
Source:EPDNEW (Eukaryotic Promoter Database, http://epd.vital-it.ch/)
Experiment Methods:Single-end sequencing.
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.01015,578,008 - 15,578,068EPDNEW

Additional Information

Database Acc Id Source(s)
AGR Gene RGD:1359209 AgrOrtholog
BioCyc Gene G2FUF-25712 BioCyc
Ensembl Genes ENSRNOG00000045989 Ensembl
  ENSRNOG00000047321 Ensembl, UniProtKB/TrEMBL
  ENSRNOG00000088611 Ensembl, UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000048977.5 UniProtKB/TrEMBL
  ENSRNOT00000052292.6 UniProtKB/TrEMBL
Gene3D-CATH 1.10.490.10 UniProtKB/TrEMBL
InterPro Globin-like UniProtKB/TrEMBL
  Globin/Proto UniProtKB/TrEMBL
  Globin_subset UniProtKB/TrEMBL
  Haemoglobin_a UniProtKB/TrEMBL
  Haemoglobin_pi UniProtKB/TrEMBL
  Hemoglobin_oxygen_transport UniProtKB/TrEMBL
KEGG Report rno:287167 UniProtKB/TrEMBL
NCBI Gene 287167 ENTREZGENE
PANTHER HEMOGLOBIN FAMILY MEMBER UniProtKB/TrEMBL
  HEMOGLOBIN SUBUNIT ALPHA UniProtKB/TrEMBL
Pfam Globin UniProtKB/TrEMBL
PhenoGen Hba-a3 PhenoGen
PRINTS ALPHAHAEM UniProtKB/TrEMBL
  PIHAEM UniProtKB/TrEMBL
PROSITE GLOBIN UniProtKB/TrEMBL
RatGTEx ENSRNOG00000045989 RatGTEx
  ENSRNOG00000047321 RatGTEx
  ENSRNOG00000088611 RatGTEx
Superfamily-SCOP Globin_like UniProtKB/TrEMBL
UniProt A0A0A0MP82_RAT UniProtKB/TrEMBL
  A0A0G2JSV6 ENTREZGENE
  A0A1K0FUA9_RAT UniProtKB/TrEMBL
  A0A9K3Y8D0 ENTREZGENE, UniProtKB/TrEMBL
  Q63910 ENTREZGENE, UniProtKB/TrEMBL
UniProt Secondary A0A0G2JSV6 UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2015-12-31 Hba-a3l  hemoglobin alpha, adult chain 3-like  Hba-a1  hemoglobin alpha, adult chain 1  Name and Symbol changed 629549 APPROVED
2015-12-31 Hba-a3  hemoglobin alpha, adult chain 3  Hba-a3l  hemoglobin alpha, adult chain 3-like  Name and Symbol changed 629549 APPROVED
2015-10-06 Hba-a1  hemoglobin alpha, adult chain 1  LOC287167  globin, alpha  Name and Symbol changed 629549 APPROVED
2005-12-06 LOC287167  globin, alpha      Symbol and Name updated 1559027 APPROVED
2005-07-29 LOC287167  globin, alpha      Symbol and Name status set to provisional 70820 PROVISIONAL