LOC609402 (hemoglobin subunit beta-like) - Rat Genome Database

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Pathways
Gene: LOC609402 (hemoglobin subunit beta-like) Canis lupus familiaris
Analyze
Symbol: LOC609402 (Ensembl: GLNA2)
Name: hemoglobin subunit beta-like
RGD ID: 12098737
Description: ENCODES a protein that exhibits haptoglobin binding (ortholog); hemoglobin alpha binding (ortholog); hemoglobin beta binding (ortholog); INVOLVED IN erythrocyte development (ortholog); glutathione metabolic process (ortholog); hemopoiesis (ortholog); ASSOCIATED WITH acute chest syndrome (ortholog); alpha thalassemia (ortholog); Alpha-Thalassemia 2 (ortholog); FOUND IN extracellular space (ortholog); haptoglobin-hemoglobin complex (ortholog); hemoglobin complex (ortholog)
Type: protein-coding
RefSeq Status: PROVISIONAL
RGD Orthologs
Human
Mouse
Rat
Chinchilla
Alliance Genes
More Info more info ...
Latest Assembly: CanFam3.1 - Dog CanFam3.1 Assembly
Position:
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.12128,187,535 - 28,188,991 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha2127,904,374 - 27,905,831 (-)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.02128,904,801 - 28,906,258 (-)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl2128,896,230 - 28,932,520 (-)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.12128,248,396 - 28,249,852 (-)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.02128,475,491 - 28,476,948 (-)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.02128,611,683 - 28,613,353 (-)NCBIUU_Cfam_GSD_1.0
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene Ontology Annotations     Click to see Annotation Detail View

Cellular Component

References
Additional References at PubMed
PMID:21543841  


Genomics

Comparative Map Data
LOC609402
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.12128,187,535 - 28,188,991 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha2127,904,374 - 27,905,831 (-)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.02128,904,801 - 28,906,258 (-)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl2128,896,230 - 28,932,520 (-)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.12128,248,396 - 28,249,852 (-)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.02128,475,491 - 28,476,948 (-)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.02128,611,683 - 28,613,353 (-)NCBIUU_Cfam_GSD_1.0
HBB
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38115,225,464 - 5,227,071 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p13 Ensembl115,225,464 - 5,229,395 (-)EnsemblGRCh38hg38GRCh38
GRCh37115,246,694 - 5,248,301 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 36115,203,272 - 5,204,877 (-)NCBINCBI36Build 36hg18NCBI36
Build 34115,203,271 - 5,204,877NCBI
Celera115,365,367 - 5,366,972 (-)NCBICelera
Cytogenetic Map11p15.4NCBI
HuRef114,905,869 - 4,907,474 (-)NCBIHuRef
CHM1_1115,245,631 - 5,247,236 (-)NCBICHM1_1
T2T-CHM13v2.0115,284,832 - 5,286,439 (-)NCBIT2T-CHM13v2.0
Hbb-b1
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
MGSCv377110,961,042 - 110,962,437 (-)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv367103,686,347 - 103,687,744 (-)NCBIMGSCv36mm8
Celera796,819,753 - 96,820,010 (-)NCBICelera
Cytogenetic Map7E3NCBI
cM Map754.85NCBI
Hbb
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.21158,250,421 - 158,251,832 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1158,120,200 - 158,252,012 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx1166,255,149 - 166,256,560 (-)NCBIRnor_SHR
UTH_Rnor_SHRSP_BbbUtx_1.01173,435,166 - 173,436,577 (-)NCBIRnor_SHRSP
UTH_Rnor_WKY_Bbb_1.01166,323,366 - 166,324,777 (-)NCBIRnor_WKY
Rnor_6.01168,971,269 - 168,972,680 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1168,971,274 - 168,972,725 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01175,134,672 - 175,136,083 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41161,618,782 - 161,620,193 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.11161,666,147 - 161,701,483 (-)NCBI
Celera1156,261,276 - 156,262,687 (-)NCBICelera
RH 3.4 Map11291.6RGD
Cytogenetic Map1q32NCBI
Hbb
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0NW_00495541421,188,012 - 21,189,363 (-)NCBIChiLan1.0ChiLan1.0

Variants

.
Variants in LOC609402
50 total Variants

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 reproductive system respiratory system adipose tissue
High 1 3 5 3 6 3 1 6 1
Medium 4 2 17 3 3 6 6 11 1 4 5
Low 7
Below cutoff

Sequence


Reference Sequences
RefSeq Acc Id: ENSCAFT00845035632   ⟹   ENSCAFP00845027876
RefSeq Status:
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
ROS_Cfam_1.0 Ensembl2128,896,230 - 28,922,095 (-)Ensembl
RefSeq Acc Id: ENSCAFT00845035684   ⟹   ENSCAFP00845027919
RefSeq Status:
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
ROS_Cfam_1.0 Ensembl2128,896,230 - 28,906,535 (-)Ensembl
RefSeq Acc Id: ENSCAFT00845035729   ⟹   ENSCAFP00845027954
RefSeq Status:
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
ROS_Cfam_1.0 Ensembl2128,896,344 - 28,906,463 (-)Ensembl
RefSeq Acc Id: ENSCAFT00845035780   ⟹   ENSCAFP00845027994
RefSeq Status:
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
ROS_Cfam_1.0 Ensembl2128,898,675 - 28,906,244 (-)Ensembl
RefSeq Acc Id: ENSCAFT00845035819   ⟹   ENSCAFP00845028024
RefSeq Status:
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
ROS_Cfam_1.0 Ensembl2128,898,676 - 28,922,113 (-)Ensembl
RefSeq Acc Id: ENSCAFT00845035888   ⟹   ENSCAFP00845028081
RefSeq Status:
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
ROS_Cfam_1.0 Ensembl2128,898,679 - 28,922,097 (-)Ensembl
RefSeq Acc Id: ENSCAFT00845035936   ⟹   ENSCAFP00845028125
RefSeq Status:
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
ROS_Cfam_1.0 Ensembl2128,898,679 - 28,906,224 (-)Ensembl
RefSeq Acc Id: ENSCAFT00845035990   ⟹   ENSCAFP00845028167
RefSeq Status:
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
ROS_Cfam_1.0 Ensembl2128,898,681 - 28,932,520 (-)Ensembl
RefSeq Acc Id: ENSCAFT00845036033   ⟹   ENSCAFP00845028201
RefSeq Status:
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
ROS_Cfam_1.0 Ensembl2128,898,681 - 28,929,168 (-)Ensembl
RefSeq Acc Id: ENSCAFT00845036079   ⟹   ENSCAFP00845028236
RefSeq Status:
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
ROS_Cfam_1.0 Ensembl2128,904,801 - 28,922,097 (-)Ensembl
RefSeq Acc Id: NM_001270883   ⟹   NP_001257812
RefSeq Status: PROVISIONAL
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
CanFam3.12128,187,535 - 28,188,991 (-)NCBI
Dog10K_Boxer_Tasha2127,904,374 - 27,905,831 (-)NCBI
ROS_Cfam_1.02128,904,801 - 28,906,258 (-)NCBI
UMICH_Zoey_3.12128,248,396 - 28,249,852 (-)NCBI
UNSW_CanFamBas_1.02128,475,491 - 28,476,948 (-)NCBI
UU_Cfam_GSD_1.02128,611,683 - 28,613,353 (-)NCBI
Sequence:
Protein Sequences
Protein RefSeqs NP_001257812 (Get FASTA)   NCBI Sequence Viewer  
Reference Sequences
RefSeq Acc Id: NP_001257812   ⟸   NM_001270883
- UniProtKB: A0A1K0GGH0 (UniProtKB/TrEMBL),   A0A8C0K9M2 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: ENSCAFP00845028081   ⟸   ENSCAFT00845035888
RefSeq Acc Id: ENSCAFP00845027954   ⟸   ENSCAFT00845035729
RefSeq Acc Id: ENSCAFP00845027919   ⟸   ENSCAFT00845035684
RefSeq Acc Id: ENSCAFP00845028201   ⟸   ENSCAFT00845036033
RefSeq Acc Id: ENSCAFP00845027876   ⟸   ENSCAFT00845035632
RefSeq Acc Id: ENSCAFP00845028167   ⟸   ENSCAFT00845035990
RefSeq Acc Id: ENSCAFP00845028125   ⟸   ENSCAFT00845035936
RefSeq Acc Id: ENSCAFP00845028024   ⟸   ENSCAFT00845035819
RefSeq Acc Id: ENSCAFP00845028236   ⟸   ENSCAFT00845036079
RefSeq Acc Id: ENSCAFP00845027994   ⟸   ENSCAFT00845035780
Protein Domains
Globin family profile

Promoters
RGD ID:13687217
Promoter ID:EPDNEW_C5285
Type:single initiation site
Name:ENSCAFT00000022860_1
Description:hemoglobin subunit beta-like
SO ACC ID:SO:0000170
Source:EPDNEW (Eukaryotic Promoter Database, http://epd.vital-it.ch/)
Experiment Methods:Single-end sequencing.
Position:
Dog AssemblyChrPosition (strand)Source
CanFam3.12128,188,975 - 28,189,035EPDNEW

Additional Information

Database Acc Id Source(s)
Ensembl Genes ENSCAFG00000030286 UniProtKB/TrEMBL
  ENSCAFG00845020234 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Protein ENSCAFP00000009264.5 UniProtKB/TrEMBL
  ENSCAFP00000021235.5 UniProtKB/TrEMBL
  ENSCAFP00000036074.3 UniProtKB/TrEMBL
  ENSCAFP00000047979.2 UniProtKB/TrEMBL
  ENSCAFP00000057346.2 UniProtKB/TrEMBL
  ENSCAFP00000062635.2 UniProtKB/TrEMBL
  ENSCAFP00000063042.2 UniProtKB/TrEMBL
  ENSCAFP00000063451.2 UniProtKB/TrEMBL
  ENSCAFP00000068036.1 UniProtKB/TrEMBL
  ENSCAFP00845027876.1 UniProtKB/TrEMBL
  ENSCAFP00845027919.1 UniProtKB/TrEMBL
  ENSCAFP00845027954.1 UniProtKB/TrEMBL
  ENSCAFP00845027994.1 UniProtKB/TrEMBL
  ENSCAFP00845028024.1 UniProtKB/TrEMBL
  ENSCAFP00845028081.1 UniProtKB/TrEMBL
  ENSCAFP00845028125 ENTREZGENE
  ENSCAFP00845028125.1 UniProtKB/TrEMBL
  ENSCAFP00845028167.1 UniProtKB/TrEMBL
  ENSCAFP00845028201.1 UniProtKB/TrEMBL
  ENSCAFP00845028236.1 UniProtKB/TrEMBL
Ensembl Transcript ENSCAFT00000009984.5 UniProtKB/TrEMBL
  ENSCAFT00000022860.5 UniProtKB/TrEMBL
  ENSCAFT00000049468.3 UniProtKB/TrEMBL
  ENSCAFT00000069476.2 UniProtKB/TrEMBL
  ENSCAFT00000069943.2 UniProtKB/TrEMBL
  ENSCAFT00000071109.2 UniProtKB/TrEMBL
  ENSCAFT00000073363.2 UniProtKB/TrEMBL
  ENSCAFT00000082887.2 UniProtKB/TrEMBL
  ENSCAFT00000109883.1 UniProtKB/TrEMBL
  ENSCAFT00845035632.1 UniProtKB/TrEMBL
  ENSCAFT00845035684.1 UniProtKB/TrEMBL
  ENSCAFT00845035729.1 UniProtKB/TrEMBL
  ENSCAFT00845035780.1 UniProtKB/TrEMBL
  ENSCAFT00845035819.1 UniProtKB/TrEMBL
  ENSCAFT00845035888.1 UniProtKB/TrEMBL
  ENSCAFT00845035936 ENTREZGENE
  ENSCAFT00845035936.1 UniProtKB/TrEMBL
  ENSCAFT00845035990.1 UniProtKB/TrEMBL
  ENSCAFT00845036033.1 UniProtKB/TrEMBL
  ENSCAFT00845036079.1 UniProtKB/TrEMBL
Gene3D-CATH 1.10.490.10 UniProtKB/TrEMBL
InterPro Globin UniProtKB/TrEMBL
  Globin-like_sf UniProtKB/TrEMBL
  Globin/Proto UniProtKB/TrEMBL
  Haemoglobin_b UniProtKB/TrEMBL
KEGG Report cfa:480784 UniProtKB/TrEMBL
  cfa:609402 UniProtKB/TrEMBL
NCBI Gene LOC609402 ENTREZGENE
PANTHER HEMOGLOBIN FAMILY MEMBER UniProtKB/TrEMBL
  HEMOGLOBIN SUBUNIT BETA UniProtKB/TrEMBL
  HEMOGLOBIN SUBUNIT EPSILON UniProtKB/TrEMBL
Pfam Globin UniProtKB/TrEMBL
PRINTS BETAHAEM UniProtKB/TrEMBL
PROSITE GLOBIN UniProtKB/TrEMBL
Superfamily-SCOP SSF46458 UniProtKB/TrEMBL
UniProt A0A1K0GGH0 ENTREZGENE, UniProtKB/TrEMBL
  A0A8C0K9M2 ENTREZGENE
  A0A8I3P225_CANLF UniProtKB/TrEMBL
  A0A8I3P9B9_CANLF UniProtKB/TrEMBL
  A0A8I3PC15_CANLF UniProtKB/TrEMBL
  A0A8I3PH35_CANLF UniProtKB/TrEMBL
  A0A8P0TJM9_CANLF UniProtKB/TrEMBL