Efhb (EF hand domain family, member B) - Rat Genome Database

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Gene: Efhb (EF hand domain family, member B) Rattus norvegicus
Analyze
Symbol: Efhb
Name: EF hand domain family, member B
RGD ID: 1566407
Description: Predicted to enable calcium ion sensor activity. Predicted to be involved in regulation of calcineurin-NFAT signaling cascade and regulation of store-operated calcium entry. Predicted to be located in axonemal microtubule. Predicted to be active in axonemal A tubule inner sheath. Orthologous to human EFHB (EF-hand domain family member B); INTERACTS WITH amphetamine; Cuprizon; ketamine.
Type: protein-coding
RefSeq Status: PROVISIONAL
Previously known as: EF-hand domain-containing family member B; LOC301168; RGD1566407; similar to hypothetical protein 4921525D22
RGD Orthologs
Human
Mouse
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Genes
More Info more info ...
Latest Assembly: mRatBN7.2 - mRatBN7.2 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr896,608,791 - 6,680,104 (-)NCBIGRCr8
mRatBN7.296,372,191 - 6,441,678 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl96,372,194 - 6,441,919 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx97,524,938 - 7,587,963 (-)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0912,682,486 - 12,745,498 (-)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0911,846,203 - 11,909,734 (-)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.0947,988 - 120,800 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl947,724 - 120,799 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.0942,285 - 114,389 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.491,563,384 - 1,635,269NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
Cytogenetic Map9q11NCBI
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

Biological Process

Cellular Component

Molecular Function

References

References - curated
# Reference Title Reference Citation
1. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
Additional References at PubMed
PMID:12477932   PMID:30481768  


Genomics

Comparative Map Data
Efhb
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr896,608,791 - 6,680,104 (-)NCBIGRCr8
mRatBN7.296,372,191 - 6,441,678 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl96,372,194 - 6,441,919 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx97,524,938 - 7,587,963 (-)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0912,682,486 - 12,745,498 (-)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0911,846,203 - 11,909,734 (-)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.0947,988 - 120,800 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl947,724 - 120,799 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.0942,285 - 114,389 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.491,563,384 - 1,635,269NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
Cytogenetic Map9q11NCBI
EFHB
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38319,879,472 - 19,946,983 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl319,879,472 - 19,947,025 (-)EnsemblGRCh38hg38GRCh38
GRCh37319,920,964 - 19,988,475 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 36319,895,968 - 19,950,710 (-)NCBINCBI36Build 36hg18NCBI36
Build 34319,895,971 - 19,950,676NCBI
Celera319,861,484 - 19,916,233 (-)NCBICelera
Cytogenetic Map3p24.3NCBI
HuRef319,861,347 - 19,916,080 (-)NCBIHuRef
CHM1_1319,873,136 - 19,927,880 (-)NCBICHM1_1
T2T-CHM13v2.0319,883,550 - 19,951,207 (-)NCBIT2T-CHM13v2.0
Efhb
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391753,705,077 - 53,770,362 (-)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl1753,705,917 - 53,770,349 (-)EnsemblGRCm39 Ensembl
GRCm381753,398,044 - 53,463,334 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1753,398,889 - 53,463,321 (-)EnsemblGRCm38mm10GRCm38
MGSCv371753,538,214 - 53,602,646 (-)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv361752,863,818 - 52,928,250 (-)NCBIMGSCv36mm8
Celera1756,844,691 - 56,909,168 (-)NCBICelera
Cytogenetic Map17CNCBI
cM Map1727.78NCBI
Efhb
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_00495543011,932,296 - 11,987,845 (-)EnsemblChiLan1.0
ChiLan1.0NW_00495543011,932,753 - 11,986,985 (-)NCBIChiLan1.0ChiLan1.0
EFHB
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v2219,840,935 - 19,903,938 (-)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan1319,845,702 - 19,908,709 (-)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v0319,798,204 - 19,855,338 (-)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.1320,130,063 - 20,184,718 (-)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl320,128,668 - 20,184,718 (-)Ensemblpanpan1.1panPan2
EFHB
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.12323,337,293 - 23,384,362 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl2323,335,956 - 23,384,193 (+)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha2323,362,527 - 23,410,153 (+)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.02323,824,176 - 23,871,987 (+)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl2323,822,838 - 23,871,409 (+)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.12323,536,377 - 23,583,894 (+)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.02323,601,798 - 23,649,332 (+)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.02323,847,939 - 23,895,522 (+)NCBIUU_Cfam_GSD_1.0
Efhb
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_024405118179,041,162 - 179,093,637 (-)NCBIHiC_Itri_2
SpeTri2.0NW_00493647312,179,950 - 12,232,093 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
EFHB
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl136,824,503 - 6,898,764 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.1136,826,023 - 6,898,763 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.2137,728,118 - 7,798,299 (+)NCBISscrofa10.2Sscrofa10.2susScr3
EFHB
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.11564,608,440 - 64,679,276 (-)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl1564,608,604 - 64,661,298 (-)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_02366604137,634,448 - 37,700,575 (-)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Efhb
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_0046248215,216,624 - 5,269,433 (-)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_0046248215,215,680 - 5,269,500 (-)NCBIHetGla_female_1.0HetGla 1.0hetGla2

Variants

.
Variants in Efhb
525 total Variants
miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:164
Count of miRNA genes:122
Interacting mature miRNAs:127
Transcripts:ENSRNOT00000016911, ENSRNOT00000066582
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.


QTLs in Region (mRatBN7.2)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
10054141Gmadr4Adrenal mass QTL 42.450.0074adrenal gland mass (VT:0010420)both adrenal glands wet weight (CMO:0000164)9114209783Rat
70226Eae4Experimental allergic encephalomyelitis QTL 4nervous system integrity trait (VT:0010566)experimental autoimmune encephalomyelitis incidence/prevalence measurement (CMO:0001046)9125661317Rat
9589055Scfw5Subcutaneous fat weight QTL 55.550.001subcutaneous adipose mass (VT:1000472)abdominal subcutaneous fat pad weight (CMO:0002069)9137999212Rat
7411592Foco8Food consumption QTL 87.40.001eating behavior trait (VT:0001431)feed conversion ratio (CMO:0001312)9137999212Rat
9589158Gluco65Glucose level QTL 656.820.001blood glucose amount (VT:0000188)plasma glucose level (CMO:0000042)9137999212Rat
1300124Cm4Cardiac mass QTL 43.55heart mass (VT:0007028)heart weight to body weight ratio (CMO:0000074)9140594091Rat
1298088Edpm11Estrogen-dependent pituitary mass QTL 112.5pituitary gland mass (VT:0010496)pituitary gland wet weight (CMO:0000853)9143718459Rat
1641911Alcrsp13Alcohol response QTL 13response to alcohol trait (VT:0010489)brain neurotensin receptor 1 density (CMO:0002068)9143718459Rat
10054125Srcrt7Stress Responsive Cort QTL 73.330.0011blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)9187073594Rat
1331757Cdexp1CD45RC expression in CD8 T cells QTL 14.3CD8-positive T cell quantity (VT:0008077)blood CD45RC(high) CD8 T cell count to CD45RC(low) CD8 T cell count ratio (CMO:0001990)9102453767509080Rat
1354650Despr5Despair related QTL 54.010.0017locomotor behavior trait (VT:0001392)amount of time spent in voluntary immobility (CMO:0001043)9125408446254084Rat
2303559Gluco54Glucose level QTL 542blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)9125408446254084Rat
1578675Bss17Bone structure and strength QTL 173.8femur morphology trait (VT:0000559)femoral neck cortical cross-sectional area (CMO:0001702)9336865213533896Rat
61425Cia15Collagen induced arthritis QTL 154.6joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)9510982642921101Rat
631211Bw4Body weight QTL45.31retroperitoneal fat pad mass (VT:0010430)retroperitoneal fat pad weight to body weight ratio (CMO:0000635)9510982650109826Rat


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 hemolymphoid system integumental system musculoskeletal system nervous system renal system reproductive system respiratory system appendage
High
Medium 7
Low 45 12 11
Below cutoff 1 6 3 13 3 3 26 4 22 3

Sequence


Reference Sequences
RefSeq Acc Id: ENSRNOT00000016911   ⟹   ENSRNOP00000016911
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl96,372,194 - 6,441,919 (-)Ensembl
Rnor_6.0 Ensembl947,724 - 120,798 (+)Ensembl
RefSeq Acc Id: ENSRNOT00000066582   ⟹   ENSRNOP00000060318
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl96,372,195 - 6,441,679 (-)Ensembl
Rnor_6.0 Ensembl947,987 - 120,799 (+)Ensembl
RefSeq Acc Id: NM_001106879   ⟹   NP_001100349
RefSeq Status: PROVISIONAL
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr896,608,794 - 6,678,267 (-)NCBI
mRatBN7.296,372,194 - 6,441,678 (-)NCBI
Rnor_6.0947,988 - 120,800 (+)NCBI
Rnor_5.0942,285 - 114,389 (+)NCBI
RGSC_v3.491,563,384 - 1,635,269 (+)RGD
Sequence:
RefSeq Acc Id: XM_039083161   ⟹   XP_038939089
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr896,608,791 - 6,677,517 (-)NCBI
mRatBN7.296,372,191 - 6,440,928 (-)NCBI
RefSeq Acc Id: XM_039083162   ⟹   XP_038939090
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr896,608,791 - 6,677,517 (-)NCBI
mRatBN7.296,372,191 - 6,440,928 (-)NCBI
RefSeq Acc Id: XM_063266838   ⟹   XP_063122908
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr896,619,606 - 6,678,578 (-)NCBI
RefSeq Acc Id: XM_063266839   ⟹   XP_063122909
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr896,608,791 - 6,680,104 (-)NCBI
Reference Protein Sequences
RefSeq Acc Id: NP_001100349   ⟸   NM_001106879
- UniProtKB: A6KUI1 (UniProtKB/TrEMBL),   A6KUI0 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: ENSRNOP00000016911   ⟸   ENSRNOT00000016911
RefSeq Acc Id: ENSRNOP00000060318   ⟸   ENSRNOT00000066582
RefSeq Acc Id: XP_038939090   ⟸   XM_039083162
- Peptide Label: isoform X3
RefSeq Acc Id: XP_038939089   ⟸   XM_039083161
- Peptide Label: isoform X2
RefSeq Acc Id: XP_063122909   ⟸   XM_063266839
- Peptide Label: isoform X3
RefSeq Acc Id: XP_063122908   ⟸   XM_063266838
- Peptide Label: isoform X1
Protein Domains
EF-hand

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-D3ZTX5-F1-model_v2 AlphaFold D3ZTX5 1-946 view protein structure

Transcriptome

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

Promoters
RGD ID:13696421
Promoter ID:EPDNEW_R6942
Type:single initiation site
Name:Efhb_1
Description:EF hand domain family, member B
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_6.0947,972 - 48,032EPDNEW

Additional Information

Database Acc Id Source(s)
AGR Gene RGD:1566407 AgrOrtholog
BioCyc Gene G2FUF-28402 BioCyc
Ensembl Genes ENSRNOG00000012618 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000016911 ENTREZGENE
  ENSRNOT00000016911.7 UniProtKB/TrEMBL
  ENSRNOT00000066582.3 UniProtKB/TrEMBL
Gene3D-CATH EF-hand UniProtKB/TrEMBL
IMAGE_CLONE IMAGE:7098775 IMAGE-MGC_LOAD
InterPro EF-hand-like_dom UniProtKB/TrEMBL
  EF_Hand_1_Ca_BS UniProtKB/TrEMBL
  EF_hand_Ca-bd UniProtKB/TrEMBL
  EFHC1/EFHC2/EFHB UniProtKB/TrEMBL
KEGG Report rno:301168 UniProtKB/TrEMBL
MGC_CLONE MGC:187959 IMAGE-MGC_LOAD
NCBI Gene 301168 ENTREZGENE
PANTHER EF-HAND DOMAIN-CONTAINING FAMILY MEMBER B UniProtKB/TrEMBL
  PTHR12086 UniProtKB/TrEMBL
Pfam EF_hand_5 UniProtKB/TrEMBL
PhenoGen Efhb PhenoGen
PROSITE EF_HAND_1 UniProtKB/TrEMBL
  EF_HAND_2 UniProtKB/TrEMBL
RatGTEx ENSRNOG00000012618 RatGTEx
SMART EFh UniProtKB/TrEMBL
Superfamily-SCOP SSF47473 UniProtKB/TrEMBL
UniProt A6KUI0 ENTREZGENE, UniProtKB/TrEMBL
  A6KUI1 ENTREZGENE, UniProtKB/TrEMBL
  B2GV10_RAT UniProtKB/TrEMBL
  D3ZTX5_RAT UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2008-04-30 Efhb  EF hand domain family, member B   Efhb_predicted  EF hand domain family, member B (predicted)  'predicted' is removed 2292626 APPROVED
2006-03-30 Efhb_predicted  EF hand domain family, member B (predicted)  RGD1566407_predicted  similar to hypothetical protein 4921525D22 (predicted)  Symbol and Name updated 1299863 APPROVED
2006-03-07 RGD1566407_predicted  similar to hypothetical protein 4921525D22 (predicted)  LOC301168  similar to hypothetical protein 4921525D22  Symbol and Name status set to approved 1299863 APPROVED
2006-02-09 LOC301168  similar to hypothetical protein 4921525D22      Symbol and Name status set to provisional 70820 PROVISIONAL