Hbq1b (hemoglobin subunit theta 1B) - Rat Genome Database

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Gene: Hbq1b (hemoglobin subunit theta 1B) Rattus norvegicus
Analyze
Symbol: Hbq1b
Name: hemoglobin subunit theta 1B
RGD ID: 2320907
Description: Predicted to have iron ion binding activity. Predicted to be involved in cellular oxidant detoxification and oxygen transport. Orthologous to human HBQ1 (hemoglobin subunit theta 1); INTERACTS WITH 1-naphthyl isothiocyanate; rotenone; benzo[a]pyrene (ortholog).
Type: protein-coding
RefSeq Status: MODEL
Also known as: Glnd1; globin d1; hemoglobin subunit theta-1; hemoglobin subunit theta-1-like; hemoglobin, theta 1B; LOC100361053; mCG1039741-like
RGD Orthologs
Human
Mouse
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Alliance Genes
More Info more info ...
Latest Assembly: Rnor_6.0 - RGSC Genome Assembly v6.0
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.21015,334,293 - 15,336,061 (-)NCBI
Rnor_6.0 Ensembl1015,600,220 - 15,600,858 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_6.01015,599,821 - 15,602,680 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_5.01015,494,916 - 15,497,693 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41015,581,391 - 15,582,593 (-)NCBIRGSC3.4rn4RGSC3.4
Celera1015,001,884 - 15,004,743 (-)NCBICelera
Cytogenetic Map10q12NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Disease Annotations     Click to see Annotation Detail View

Gene-Chemical Interaction Annotations     Click to see Annotation Detail View
Gene Ontology Annotations     Click to see Annotation Detail View

Biological Process

Cellular Component

Molecular Function

References


Genomics

Comparative Map Data
Hbq1b
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.21015,334,293 - 15,336,061 (-)NCBI
Rnor_6.0 Ensembl1015,600,220 - 15,600,858 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_6.01015,599,821 - 15,602,680 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_5.01015,494,916 - 15,497,693 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41015,581,391 - 15,582,593 (-)NCBIRGSC3.4rn4RGSC3.4
Celera1015,001,884 - 15,004,743 (-)NCBICelera
Cytogenetic Map10q12NCBI
HBQ1
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38.p13 Ensembl16180,459 - 181,179 (+)EnsemblGRCh38hg38GRCh38
GRCh3816180,459 - 181,179 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh3716230,458 - 231,178 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 3616170,335 - 171,178 (+)NCBINCBI36hg18NCBI36
Build 3416170,334 - 171,178NCBI
Celera16429,850 - 430,693 (+)NCBI
Cytogenetic Map16p13.3NCBI
HuRef16148,375 - 149,220 (+)NCBIHuRef
CHM1_116230,340 - 231,185 (+)NCBICHM1_1
Hbq1b
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391132,236,964 - 32,237,912 (+)NCBIGRCm39mm39
GRCm39 Ensembl1132,236,965 - 32,237,784 (+)Ensembl
GRCm381132,286,964 - 32,287,912 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1132,286,965 - 32,287,784 (+)EnsemblGRCm38mm10GRCm38
MGSCv371132,186,964 - 32,187,912 (+)NCBIGRCm37mm9NCBIm37
MGSCv361132,186,964 - 32,187,912 (+)NCBImm8
Celera1134,704,307 - 34,705,255 (+)NCBICelera
Cytogenetic Map11A4NCBI
Hbq1
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_00495544217,000,811 - 17,004,033 (-)EnsemblChiLan1.0
ChiLan1.0NW_00495544217,000,811 - 17,004,033 (-)NCBIChiLan1.0ChiLan1.0
HBQ1
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
PanPan1.116170,684 - 171,524 (+)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl16170,684 - 171,524 (+)Ensemblpanpan1.1panPan2
HBQ1
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Dog10K_Boxer_Tasha641,575,264 - 41,585,803 (-)NCBI
ROS_Cfam_1.0640,654,729 - 40,665,315 (-)NCBI
UMICH_Zoey_3.1640,342,936 - 40,353,434 (-)NCBI
UNSW_CanFamBas_1.0640,303,929 - 40,314,398 (-)NCBI
UU_Cfam_GSD_1.0640,782,452 - 40,793,023 (-)NCBI
Hbq1
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_024409344112,627,625 - 112,628,512 (-)NCBI
SpeTri2.0NW_004936501725,485 - 726,477 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
HBQ1
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl341,478,246 - 41,480,119 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.1341,478,282 - 41,480,152 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.2340,953,735 - 40,954,480 (+)NCBISscrofa10.2Sscrofa10.2susScr3
HBQ1
(Chlorocebus sabaeus - African green monkey)
Vervet AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.15133,766 - 134,752 (+)NCBI
ChlSab1.1 Ensembl5134,059 - 134,681 (+)Ensembl
Vero_WHO_p1.0NW_0236686382,968 - 3,706 (-)NCBI

Position Markers
BI278462  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21015,323,916 - 15,324,261 (+)MAPPER
mRatBN7.21015,337,360 - 15,337,705 (+)MAPPER
Rnor_6.01015,602,889 - 15,603,233NCBIRnor6.0
Rnor_6.01015,589,447 - 15,589,791NCBIRnor6.0
Rnor_5.01015,497,984 - 15,498,328UniSTSRnor5.0
Rnor_5.01015,484,542 - 15,484,886UniSTSRnor5.0
RGSC_v3.41015,571,013 - 15,571,357UniSTSRGSC3.4
RGSC_v3.41015,584,455 - 15,584,799UniSTSRGSC3.4
Celera1015,004,952 - 15,005,296UniSTS
Celera1014,991,503 - 14,991,847UniSTS
Cytogenetic Map10q12UniSTS
RH94431  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21015,337,265 - 15,337,360 (+)MAPPER
Rnor_6.01015,602,794 - 15,602,888NCBIRnor6.0
Rnor_5.01015,497,889 - 15,497,983UniSTSRnor5.0
RGSC_v3.41015,584,360 - 15,584,454UniSTSRGSC3.4
Celera1015,004,857 - 15,004,951UniSTS
RH 3.4 Map10153.7UniSTS
Cytogenetic Map10q12UniSTS
Cytogenetic Map1q22UniSTS
BI280228  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21015,337,287 - 15,337,451 (+)MAPPER
Rnor_6.01015,602,816 - 15,602,979NCBIRnor6.0
Rnor_5.01015,497,911 - 15,498,074UniSTSRnor5.0
RGSC_v3.41015,584,382 - 15,584,545UniSTSRGSC3.4
Celera1015,004,879 - 15,005,042UniSTS
RH 3.4 Map10151.86UniSTS
Cytogenetic Map10q12UniSTS
Cytogenetic Map1q22UniSTS
UniSTS:465391  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21015,324,015 - 15,324,388 (+)MAPPER
mRatBN7.21015,337,459 - 15,337,832 (+)MAPPER
Rnor_6.01015,602,988 - 15,603,360NCBIRnor6.0
Rnor_6.01015,589,546 - 15,589,918NCBIRnor6.0
Rnor_5.01015,498,083 - 15,498,455UniSTSRnor5.0
Rnor_5.01015,484,641 - 15,485,013UniSTSRnor5.0
RGSC_v3.41015,571,112 - 15,571,484UniSTSRGSC3.4
RGSC_v3.41015,584,554 - 15,584,926UniSTSRGSC3.4
Celera1015,005,051 - 15,005,423UniSTS
Celera1014,991,602 - 14,991,974UniSTS
Cytogenetic Map10q12UniSTS


QTLs in Region (Rnor_6.0)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
7387235Uae41Urinary albumin excretion QTL 415.260.1874urine albumin amount (VT:0002871)urine albumin excretion rate (CMO:0000757)10129592136Rat
2293680Bss40Bone structure and strength QTL 405.660.0001femur strength trait (VT:0010010)femur total energy absorbed before break (CMO:0001677)10135538813Rat
634327Hc4Hypercalciuria QTL 42.4urine calcium amount (VT:0002985)urine calcium excretion rate (CMO:0000763)10138594330Rat
7411611Foco17Food consumption QTL 1718.70.001eating behavior trait (VT:0001431)feed conversion ratio (CMO:0001312)10142669970Rat
10401803Kidm50Kidney mass QTL 50kidney mass (VT:0002707)both kidneys wet weight (CMO:0000085)10144902893Rat
631554Bp133Blood pressure QTL 1330.005arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)1076442166221621Rat
1576304Schws7Schwannoma susceptibility QTL 70.0115nervous system integrity trait (VT:0010566)percentage of study population developing trigeminal nerve neurilemmomas during a period of time (CMO:0002017)10483563820170031Rat
631828Alc5Alcohol consumption QTL 52.4consumption behavior trait (VT:0002069)ethanol drink intake rate (CMO:0001407)10521719917555534Rat
737820Alc9Alcohol consumption QTL 92.2consumption behavior trait (VT:0002069)ethanol drink intake rate (CMO:0001407)10521719919591669Rat
2313064Bmd71Bone mineral density QTL 710.90.0001tibia mineral mass (VT:1000283)cortical volumetric bone mineral density (CMO:0001730)10546011921524070Rat
2313066Bss63Bone structure and strength QTL 631.40.0001tibia strength trait (VT:1000284)bone polar moment of inertia (CMO:0001558)10546011921524070Rat
2313081Bss64Bone structure and strength QTL 641.30.0001tibia strength trait (VT:1000284)tibia total energy absorbed before break (CMO:0001736)10546011921524070Rat
2313095Bss62Bone structure and strength QTL 621.50.0001tibia size trait (VT:0100001)tibia midshaft cross-sectional area (CMO:0001717)10546011921524070Rat
2313104Bss61Bone structure and strength QTL 610.90.0001tibia area (VT:1000281)tibia midshaft cross-sectional area (CMO:0001717)10546011921524070Rat
2298544Neuinf9Neuroinflammation QTL 94.6nervous system integrity trait (VT:0010566)spinal cord complement component 1, q subcomponent, B chain mRNA level (CMO:0002126)10587753664401490Rat
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)10622909575983805Rat
631660Hcar1Hepatocarcinoma resistance QTL 13.40.0001liver integrity trait (VT:0010547)volume of individual liver tumorous lesion (CMO:0001078)10622928936185929Rat
61427Cia16Collagen induced arthritis QTL 163.2joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)10642907599492409Rat
1578761Stresp21Stress response QTL 213.3thymus mass (VT:0004954)thymus wet weight (CMO:0000855)10752145052521450Rat
2303118Mamtr7Mammary tumor resistance QTL 70.003mammary gland integrity trait (VT:0010552)mammary tumor growth rate (CMO:0000344)109841807108540162Rat
9590310Scort19Serum corticosterone level QTL 196.30.001blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)101263951357639513Rat
9590268Scort13Serum corticosterone level QTL 133.260.001blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)101263951357639513Rat
9589136Insul27Insulin level QTL 2710.460.001blood insulin amount (VT:0001560)plasma insulin level (CMO:0000342)101263951357639513Rat
2301967Cm73Cardiac mass QTL 734.55heart left ventricle mass (VT:0007031)heart left ventricle weight to body weight ratio (CMO:0000530)101482789492423564Rat
631268Cia21Collagen induced arthritis QTL 213.1joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)1014827894107857673Rat
2316949Gluco60Glucose level QTL 603.7blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)1014827894110992275Rat
1354587Kidm21Kidney mass QTL 213.3kidney mass (VT:0002707)right kidney wet weight (CMO:0000082)101537547462469074Rat

miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:380
Count of miRNA genes:188
Interacting mature miRNAs:214
Transcripts:ENSRNOT00000035459, ENSRNOT00000067457
Prediction methods:Microtar, 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.


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 6 20 20 9 20 1 1
Low 1 35 26 11 10 11 4 5 58 33 25 10 4
Below cutoff 2 11 10 10 3 4 14 2 13 3

Sequence

Nucleotide Sequences
RefSeq Transcripts XM_002724666 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_002727758 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017597613 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017604027 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039087121 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
GenBank Nucleotide AC096051 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ225268 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ226375 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ226755 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ226769 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ230219 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ230951 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ231391 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ233755 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ233786 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ234798 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  JACYVU010000219 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  LT548171 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles

Reference Sequences
RefSeq Acc Id: ENSRNOT00000035459   ⟹   ENSRNOP00000037248
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 Ensembl1015,600,220 - 15,600,858 (-)Ensembl
RefSeq Acc Id: XM_002724666   ⟹   XP_002724712
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Celera1015,001,884 - 15,004,743 (-)NCBI
Sequence:
RefSeq Acc Id: XM_002727758   ⟹   XP_002727804
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21015,334,293 - 15,335,545 (-)NCBI
Rnor_6.01015,599,821 - 15,602,680 (-)NCBI
Rnor_5.01015,494,916 - 15,497,693 (-)NCBI
RGSC_v3.41015,581,391 - 15,582,593 (-)RGD
Sequence:
RefSeq Acc Id: XM_017597613   ⟹   XP_017453102
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21015,334,297 - 15,336,061 (-)NCBI
Rnor_6.01015,599,821 - 15,601,054 (-)NCBI
Sequence:
RefSeq Acc Id: XM_017604027   ⟹   XP_017459516
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Celera1015,001,884 - 15,003,117 (-)NCBI
Sequence:
RefSeq Acc Id: XM_039087121   ⟹   XP_038943049
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21015,334,293 - 15,336,027 (-)NCBI
Protein Sequences
Protein RefSeqs XP_002727804 (Get FASTA)   NCBI Sequence Viewer  
  XP_017453102 (Get FASTA)   NCBI Sequence Viewer  
  XP_038943049 (Get FASTA)   NCBI Sequence Viewer  
GenBank Protein SAI82218 (Get FASTA)   NCBI Sequence Viewer  
Reference Sequences
RefSeq Acc Id: XP_002724712   ⟸   XM_002724666
- Peptide Label: isoform X1
- Sequence:
RefSeq Acc Id: XP_002727804   ⟸   XM_002727758
- Peptide Label: isoform X1
- Sequence:
RefSeq Acc Id: XP_017459516   ⟸   XM_017604027
- Peptide Label: isoform X2
- Sequence:
RefSeq Acc Id: XP_017453102   ⟸   XM_017597613
- Peptide Label: isoform X2
- Sequence:
RefSeq Acc Id: ENSRNOP00000037248   ⟸   ENSRNOT00000035459
RefSeq Acc Id: XP_038943049   ⟸   XM_039087121
- Peptide Label: isoform X1
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)
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
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:2320907 AgrOrtholog
Ensembl Genes ENSRNOG00000028114 Ensembl, UniProtKB/TrEMBL
Ensembl Protein ENSRNOP00000037248 UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000035459 UniProtKB/TrEMBL
Gene3D-CATH 1.10.490.10 UniProtKB/TrEMBL
InterPro Globin UniProtKB/TrEMBL
  Globin-like_sf UniProtKB/TrEMBL
  Globin/Proto UniProtKB/TrEMBL
  Haemoglobin_a-typ UniProtKB/TrEMBL
  Haemoglobin_pi UniProtKB/TrEMBL
NCBI Gene 100361053 ENTREZGENE
Pfam Globin UniProtKB/TrEMBL
PhenoGen Hbq1b PhenoGen
PRINTS ALPHAHAEM UniProtKB/TrEMBL
  PIHAEM UniProtKB/TrEMBL
PROSITE GLOBIN UniProtKB/TrEMBL
Superfamily-SCOP SSF46458 UniProtKB/TrEMBL
UniProt D4A021_RAT UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2017-07-17 Hbq1b  hemoglobin subunit theta 1B  Hbq1b  hemoglobin, theta 1B  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2012-08-09 Hbq1b  hemoglobin, theta 1B  LOC100361053  mCG1039741-like  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2010-05-05 LOC100361053  mCG1039741-like      Symbol and Name status set to provisional 70820 PROVISIONAL