LOC103225553 (EF-hand domain-containing protein D2) - Rat Genome Database

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Gene: LOC103225553 (EF-hand domain-containing protein D2) Chlorocebus sabaeus
Analyze
Symbol: LOC103225553 (Ensembl: EFHD2)
Name: EF-hand domain-containing protein D2 (Ensembl:EF-hand domain family member D2)
RGD ID: 18771838
Description: ENCODES a protein that exhibits calcium ion binding (inferred); metal ion binding (inferred); ASSOCIATED WITH Binge Drinking (ortholog); chromosome 1p36 deletion syndrome (ortholog); genetic disease (ortholog)
Type: protein-coding
RefSeq Status: MODEL
Previously known as: EF-hand domain family member D2; EFHD2
RGD Orthologs
Human
Mouse
Rat
Chinchilla
Bonobo
Dog
Squirrel
Pig
Naked Mole-Rat
Alliance Genes
More Info more info ...
Latest Assembly: ChlSab1.1 - Green Monkey 1.1 Assembly
Position:
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.120116,843,362 - 116,863,017 (-)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl20116,843,218 - 116,863,010 (-)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_02366605420,492,734 - 20,573,680 (-)NCBIVero_WHO_p1.0Vero_WHO_p1.0
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

Molecular Function

References
Additional References at PubMed
PMID:22301074   PMID:30032202  


Genomics

Comparative Map Data
LOC103225553
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.120116,843,362 - 116,863,017 (-)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl20116,843,218 - 116,863,010 (-)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_02366605420,492,734 - 20,573,680 (-)NCBIVero_WHO_p1.0Vero_WHO_p1.0
EFHD2
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38115,409,888 - 15,430,339 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl115,409,888 - 15,430,339 (+)EnsemblGRCh38hg38GRCh38
GRCh37115,736,384 - 15,756,835 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 36115,609,028 - 15,629,422 (+)NCBINCBI36Build 36hg18NCBI36
Build 34115,481,746 - 15,502,140NCBI
Celera114,219,263 - 14,239,714 (+)NCBICelera
Cytogenetic Map1p36.21NCBI
HuRef114,256,454 - 14,276,896 (+)NCBIHuRef
CHM1_1115,535,095 - 15,555,543 (+)NCBICHM1_1
T2T-CHM13v2.0114,854,637 - 14,875,085 (+)NCBIT2T-CHM13v2.0
Efhd2
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm394141,585,453 - 141,602,231 (-)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl4141,585,453 - 141,602,231 (-)EnsemblGRCm39 Ensembl
GRCm384141,858,142 - 141,874,920 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl4141,858,142 - 141,874,920 (-)EnsemblGRCm38mm10GRCm38
MGSCv374141,414,057 - 141,430,835 (-)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv364141,130,218 - 141,146,996 (-)NCBIMGSCv36mm8
Celera4143,666,490 - 143,692,038 (-)NCBICelera
Cytogenetic Map4D3NCBI
cM Map474.75NCBI
Efhd2
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr85159,443,959 - 159,459,993 (-)NCBIGRCr8
mRatBN7.25154,160,945 - 154,176,980 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl5154,160,946 - 154,176,980 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx5156,845,695 - 156,861,764 (-)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.05158,618,991 - 158,635,071 (-)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.05158,608,143 - 158,624,226 (-)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.05160,407,777 - 160,423,811 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl5160,407,778 - 160,423,811 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.05164,119,686 - 164,135,720 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.45160,759,737 - 160,775,765 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.15160,769,728 - 160,786,130 (-)NCBI
Celera5152,512,797 - 152,528,837 (-)NCBICelera
Cytogenetic Map5q36NCBI
Efhd2
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049555272,724,500 - 2,739,324 (-)EnsemblChiLan1.0
ChiLan1.0NW_0049555272,724,607 - 2,739,324 (-)NCBIChiLan1.0ChiLan1.0
EFHD2
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v21211,489,650 - 211,510,179 (-)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan11210,738,109 - 210,758,623 (-)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v0114,548,253 - 14,568,784 (+)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.1115,542,257 - 15,563,669 (+)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl115,542,609 - 15,562,063 (+)Ensemblpanpan1.1panPan2
EFHD2
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1282,086,761 - 82,090,680 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl282,088,244 - 82,091,033 (-)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha278,624,095 - 78,639,764 (-)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.0282,735,969 - 82,751,654 (-)NCBIROS_Cfam_1.0
UMICH_Zoey_3.1279,488,736 - 79,504,399 (-)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.0280,506,682 - 80,522,239 (-)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0281,571,202 - 81,586,815 (-)NCBIUU_Cfam_GSD_1.0
Efhd2
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440505837,288,360 - 37,303,439 (+)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_0049364743,112,954 - 3,128,363 (+)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_0049364743,113,116 - 3,128,348 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
EFHD2
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl674,651,809 - 74,668,409 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.1674,651,814 - 74,668,352 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.2669,032,997 - 69,049,437 (+)NCBISscrofa10.2Sscrofa10.2susScr3
Efhd2
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_0046247641,722,561 - 1,737,818 (+)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_0046247641,722,867 - 1,737,708 (+)NCBIHetGla_female_1.0HetGla 1.0hetGla2


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

endocrine system hemolymphoid system nervous system
High
Medium 28 20 25
Low 8 35
Below cutoff

Sequence


Reference Sequences
RefSeq Acc Id: ENSCSAT00000017703   ⟹   ENSCSAP00000017176
Type: CODING
Position:
Green Monkey AssemblyChrPosition (strand)Source
ChlSab1.1 Ensembl20116,843,218 - 116,863,010 (-)Ensembl
RefSeq Acc Id: XM_037984717   ⟹   XP_037840645
Type: CODING
Position:
Green Monkey AssemblyChrPosition (strand)Source
Vero_WHO_p1.0NW_02366605420,492,734 - 20,573,680 (-)NCBI
Protein Sequences
Protein RefSeqs XP_037840645 (Get FASTA)   NCBI Sequence Viewer  
Ensembl Protein ENSCSAP00000017176.1
Reference Protein Sequences
RefSeq Acc Id: ENSCSAP00000017176   ⟸   ENSCSAT00000017703
RefSeq Acc Id: XP_037840645   ⟸   XM_037984717


Additional Information

Database Acc Id Source(s)
Ensembl Genes ENSCSAG00000000830 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSCSAT00000017703.1 UniProtKB/TrEMBL
Gene3D-CATH EF-hand UniProtKB/TrEMBL
InterPro AIF-1_EF_pair UniProtKB/TrEMBL
  EF-hand-dom_pair UniProtKB/TrEMBL
  EF_hand_dom UniProtKB/TrEMBL
  EFHD1/2 UniProtKB/TrEMBL
KEGG Report csab:103225553 UniProtKB/TrEMBL
NCBI Gene EFHD2 ENTREZGENE
PANTHER EF-HAND DOMAIN-CONTAINING PROTEIN D2 UniProtKB/TrEMBL
  PTHR13025 UniProtKB/TrEMBL
Pfam AIF-1 UniProtKB/TrEMBL
PROSITE EF_HAND_2 UniProtKB/TrEMBL
SMART EFh UniProtKB/TrEMBL
Superfamily-SCOP SSF47473 UniProtKB/TrEMBL
UniProt A0A0D9S8I7_CHLSB UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2020-12-08 LOC103225553  EF-hand domain-containing protein D2  EFHD2  EF-hand domain family member D2  Symbol and/or name change 5135510 APPROVED