Slc39a4 (solute carrier family 39 member 4) - Rat Genome Database

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Gene: Slc39a4 (solute carrier family 39 member 4) Ictidomys tridecemlineatus
Analyze
Symbol: Slc39a4
Name: solute carrier family 39 member 4
RGD ID: 12527117
Description: ENCODES a protein that exhibits metal ion binding (ortholog); INVOLVED IN cellular response to zinc ion starvation (ortholog); ASSOCIATED WITH acrodermatitis (ortholog); acrodermatitis enteropathica (ortholog); Brown-Vialetto-Van Laere syndrome 2 (ortholog); FOUND IN apical plasma membrane (inferred); cytoplasmic vesicle (inferred); membrane (inferred)
Type: protein-coding
RefSeq Status: MODEL
Previously known as: zinc transporter ZIP4
RGD Orthologs
Human
Mouse
Rat
Chinchilla
Bonobo
Dog
Pig
Green Monkey
Naked Mole-Rat
Alliance Genes
More Info more info ...
Latest Assembly: SpeTri2.0 - Squirrel SpeTri2.0 Assembly
Position:
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_024405303411,386 - 416,321 (+)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_0049364707,838,030 - 7,842,262 (+)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_0049364707,836,612 - 7,842,262 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
JBrowse: View Region in Genome Browser (JBrowse)
Model


References
Additional References at PubMed
PMID:22301074   PMID:30032202  


Genomics

Comparative Map Data
Slc39a4
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_024405303411,386 - 416,321 (+)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_0049364707,838,030 - 7,842,262 (+)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_0049364707,836,612 - 7,842,262 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
SLC39A4
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh388144,412,414 - 144,416,844 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl8144,409,742 - 144,416,844 (-)EnsemblGRCh38hg38GRCh38
GRCh378145,637,798 - 145,642,228 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 368145,608,606 - 145,613,081 (-)NCBINCBI36Build 36hg18NCBI36
Build 348145,608,606 - 145,613,081NCBI
Celera8141,812,232 - 141,816,707 (-)NCBICelera
Cytogenetic Map8q24.3NCBI
HuRef8140,751,031 - 140,755,512 (-)NCBIHuRef
CHM1_18145,676,089 - 145,680,570 (-)NCBICHM1_1
T2T-CHM13v2.08145,582,227 - 145,586,657 (-)NCBIT2T-CHM13v2.0
Slc39a4
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391576,496,583 - 76,501,579 (-)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl1576,496,583 - 76,501,584 (-)EnsemblGRCm39 Ensembl
GRCm381576,612,383 - 76,618,506 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1576,612,383 - 76,617,384 (-)EnsemblGRCm38mm10GRCm38
MGSCv371576,442,813 - 76,447,282 (-)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv361576,439,638 - 76,444,107 (-)NCBIMGSCv36mm8
Celera1578,105,998 - 78,110,467 (-)NCBICelera
Cytogenetic Map15D3NCBI
cM Map1536.16NCBI
Slc39a4
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr87110,214,017 - 110,218,202 (-)NCBIGRCr8
mRatBN7.27108,333,368 - 108,337,553 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl7108,333,381 - 108,337,553 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx7110,075,214 - 110,079,418 (-)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.07112,298,788 - 112,302,992 (-)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.07112,259,628 - 112,263,832 (-)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.07117,675,718 - 117,682,586 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl7117,675,720 - 117,680,004 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.07117,663,813 - 117,667,986 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.47114,661,925 - 114,666,098 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.17114,696,147 - 114,700,327 (-)NCBI
Celera7104,683,583 - 104,687,756 (-)NCBICelera
Cytogenetic Map7q34NCBI
Slc39a4
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049554543,040,877 - 3,046,250 (-)EnsemblChiLan1.0
ChiLan1.0NW_0049554543,041,316 - 3,047,419 (-)NCBIChiLan1.0ChiLan1.0
SLC39A4
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v27161,903,143 - 161,908,026 (-)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan18137,432,188 - 137,437,027 (-)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v08141,178,792 - 141,183,565 (-)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.18144,169,089 - 144,173,517 (-)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl8144,169,089 - 144,173,517 (-)Ensemblpanpan1.1panPan2
SLC39A4
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.11337,833,073 - 37,838,304 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl1337,833,156 - 37,838,522 (-)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha1337,794,803 - 37,799,894 (-)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.01338,307,751 - 38,312,842 (-)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl1338,308,739 - 38,312,970 (-)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.11337,999,570 - 38,004,661 (-)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.01338,108,215 - 38,113,309 (-)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.01338,584,583 - 38,589,678 (-)NCBIUU_Cfam_GSD_1.0
SLC39A4
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl4372,660 - 378,516 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.14372,681 - 378,519 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.24464,005 - 469,123 (+)NCBISscrofa10.2Sscrofa10.2susScr3
SLC39A4
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.18138,622,100 - 138,626,749 (-)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl8138,622,224 - 138,626,376 (-)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_0236660391,229,126 - 1,234,212 (+)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Slc39a4
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_00462473512,434,169 - 12,438,510 (+)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_00462473512,433,024 - 12,438,406 (+)NCBIHetGla_female_1.0HetGla 1.0hetGla2


Expression


Sequence


Reference Sequences
RefSeq Acc Id: ENSSTOT00000015015   ⟹   ENSSTOP00000013454
Type: CODING
Position:
Squirrel AssemblyChrPosition (strand)Source
SpeTri2.0 EnsemblNW_0049364707,838,030 - 7,842,262 (+)Ensembl
RefSeq Acc Id: XM_040293458   ⟹   XP_040149392
Type: CODING
Position:
Squirrel AssemblyChrPosition (strand)Source
HiC_Itri_2NW_024405303411,386 - 416,321 (+)NCBI
RefSeq Acc Id: XM_040293459   ⟹   XP_040149393
Type: CODING
Position:
Squirrel AssemblyChrPosition (strand)Source
HiC_Itri_2NW_024405303411,386 - 416,321 (+)NCBI
Protein Sequences
Protein RefSeqs XP_040149392 (Get FASTA)   NCBI Sequence Viewer  
  XP_040149393 (Get FASTA)   NCBI Sequence Viewer  
Ensembl Protein ENSSTOP00000013454.3
Reference Protein Sequences
RefSeq Acc Id: XP_040149392   ⟸   XM_040293458
- Peptide Label: isoform X1
- UniProtKB: I3MP02 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_040149393   ⟸   XM_040293459
- Peptide Label: isoform X2
- UniProtKB: I3MP02 (UniProtKB/TrEMBL)
RefSeq Acc Id: ENSSTOP00000013454   ⟸   ENSSTOT00000015015
Protein Domains
Zinc transporter ZIP4 N-terminal   Zinc transporter ZIP4/12 EF-hand


Additional Information

Database Acc Id Source(s)
Ensembl Genes ENSSTOG00000014999 Ensembl, UniProtKB/TrEMBL
Ensembl Transcript ENSSTOT00000015015.3 UniProtKB/TrEMBL
InterPro ZIP UniProtKB/TrEMBL
  ZIP4_12_EF-hand UniProtKB/TrEMBL
  ZIP4_N UniProtKB/TrEMBL
NCBI Gene Slc39a4 ENTREZGENE
PANTHER SOLUTE CARRIER FAMILY 39 UniProtKB/TrEMBL
  ZINC TRANSPORTER ZIP4 UniProtKB/TrEMBL
Pfam EF-hand_Zip UniProtKB/TrEMBL
  Zip UniProtKB/TrEMBL
  ZIP4_domain UniProtKB/TrEMBL
UniProt I3MP02 ENTREZGENE, UniProtKB/TrEMBL