SLC39A6 (solute carrier family 39 member 6) - Rat Genome Database

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Gene: SLC39A6 (solute carrier family 39 member 6) Chlorocebus sabaeus
Analyze
Symbol: SLC39A6
Name: solute carrier family 39 member 6
RGD ID: 18383885
Description: ENCODES a protein that exhibits metal ion transmembrane transporter activity (inferred); monoatomic cation:bicarbonate symporter activity (inferred); zinc ion transmembrane transporter activity (inferred); INVOLVED IN bicarbonate transport (inferred); epithelial to mesenchymal transition (inferred); intracellular zinc ion homeostasis (inferred); ASSOCIATED WITH Breast Neoplasms (ortholog); esophagus squamous cell carcinoma (ortholog); Experimental Liver Cirrhosis (ortholog); FOUND IN apical plasma membrane (ortholog)
Type: protein-coding
RefSeq Status: MODEL
Previously known as: zinc transporter ZIP6
RGD Orthologs
Human
Mouse
Rat
Chinchilla
Bonobo
Dog
Squirrel
Pig
Naked Mole-Rat
Alliance Orthologs
More Info more info ...
Latest Assembly: ChlSab1.1 - Green Monkey 1.1 Assembly
Position:
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.11844,681,718 - 44,702,741 (+)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl1844,681,508 - 44,702,754 (+)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_02366605019,141,804 - 19,163,079 (+)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

Cellular Component

References
Additional References at PubMed
PMID:22301074   PMID:30032202  


Genomics

Comparative Map Data
SLC39A6
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.11844,681,718 - 44,702,741 (+)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl1844,681,508 - 44,702,754 (+)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_02366605019,141,804 - 19,163,079 (+)NCBIVero_WHO_p1.0Vero_WHO_p1.0
SLC39A6
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh381836,108,531 - 36,129,340 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl1836,108,531 - 36,129,385 (-)EnsemblGRCh38hg38GRCh38
GRCh371833,688,494 - 33,709,303 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 361831,942,492 - 31,963,355 (-)NCBINCBI36Build 36hg18NCBI36
Build 341831,943,196 - 31,963,203NCBI
Celera1830,496,380 - 30,517,237 (-)NCBICelera
Cytogenetic Map18q12.2NCBI
HuRef1830,547,399 - 30,568,273 (-)NCBIHuRef
CHM1_11833,615,574 - 33,636,438 (-)NCBICHM1_1
T2T-CHM13v2.01836,300,097 - 36,320,904 (-)NCBIT2T-CHM13v2.0
Slc39a6
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391824,712,938 - 24,736,874 (-)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl1824,712,938 - 24,736,874 (-)EnsemblGRCm39 Ensembl
GRCm381824,579,881 - 24,603,817 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1824,579,881 - 24,603,817 (-)EnsemblGRCm38mm10GRCm38
MGSCv371824,738,382 - 24,762,318 (-)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv361824,722,891 - 24,744,582 (-)NCBIMGSCv36mm8
Celera1825,061,823 - 25,085,732 (-)NCBICelera
Cytogenetic Map18A2NCBI
cM Map1813.18NCBI
Slc39a6
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr81816,139,621 - 16,160,163 (-)NCBIGRCr8
mRatBN7.21815,864,874 - 15,885,417 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1815,864,875 - 15,885,417 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx1816,052,216 - 16,072,721 (-)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.01816,834,922 - 16,855,427 (-)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.01816,123,136 - 16,143,636 (-)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.01816,523,450 - 16,543,992 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1816,522,982 - 16,543,992 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01816,277,809 - 16,303,318 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41816,353,725 - 16,374,267 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.11816,380,371 - 16,400,913 (-)NCBI
Celera1815,793,993 - 15,814,535 (-)NCBICelera
Cytogenetic Map18p12NCBI
Slc39a6
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_00495540222,670,437 - 22,698,591 (-)EnsemblChiLan1.0
ChiLan1.0NW_00495540222,670,598 - 22,698,455 (-)NCBIChiLan1.0ChiLan1.0
SLC39A6
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v21753,504,530 - 53,525,425 (-)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan11839,197,119 - 39,218,011 (-)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v01829,361,261 - 29,382,115 (-)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.11832,919,878 - 32,940,703 (-)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl1832,919,878 - 32,940,694 (-)Ensemblpanpan1.1panPan2
SLC39A6
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1754,059,193 - 54,080,582 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl754,059,193 - 54,080,582 (+)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha753,484,787 - 53,506,210 (+)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.0754,029,546 - 54,050,763 (+)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl754,029,546 - 54,051,203 (+)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.1753,712,679 - 53,734,108 (+)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.0753,736,059 - 53,757,253 (+)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0754,028,706 - 54,049,911 (+)NCBIUU_Cfam_GSD_1.0
Slc39a6
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440494449,839,576 - 49,860,672 (+)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_0049365179,167,334 - 9,189,345 (+)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_0049365179,166,989 - 9,188,114 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
SLC39A6
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl6119,861,846 - 119,885,378 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.16119,861,853 - 119,885,836 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.26112,387,757 - 112,411,495 (-)NCBISscrofa10.2Sscrofa10.2susScr3
Slc39a6
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_00462477910,399,198 - 10,432,869 (-)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_00462477910,400,581 - 10,433,405 (-)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 36 50
Low 20 10
Below cutoff

Sequence

Nucleotide Sequences
RefSeq Transcripts XM_007974249 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
GenBank Nucleotide JACDXN010000018 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles

Reference Sequences
RefSeq Acc Id: ENSCSAT00000016012   ⟹   ENSCSAP00000013937
Type: CODING
Position:
Green Monkey AssemblyChrPosition (strand)Source
ChlSab1.1 Ensembl1844,681,508 - 44,702,754 (+)Ensembl
RefSeq Acc Id: XM_007974249   ⟹   XP_007972440
Type: CODING
Position:
Green Monkey AssemblyChrPosition (strand)Source
ChlSab1.11844,681,718 - 44,702,741 (+)NCBI
Vero_WHO_p1.0NW_02366605019,141,804 - 19,163,079 (+)NCBI
Sequence:
Protein Sequences
Protein RefSeqs XP_007972440 (Get FASTA)   NCBI Sequence Viewer  
Ensembl Protein ENSCSAP00000013937
  ENSCSAP00000013937.1
Reference Protein Sequences
RefSeq Acc Id: XP_007972440   ⟸   XM_007974249
- UniProtKB: A0A0D9RZ98 (UniProtKB/TrEMBL)
RefSeq Acc Id: ENSCSAP00000013937   ⟸   ENSCSAT00000016012


Additional Information

Database Acc Id Source(s)
Ensembl Genes ENSCSAG00000017916 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSCSAT00000016012.1 UniProtKB/TrEMBL
InterPro ZIP UniProtKB/TrEMBL
KEGG Report csab:103222529 UniProtKB/TrEMBL
NCBI Gene SLC39A6 ENTREZGENE
PANTHER SOLUTE CARRIER FAMILY 39 UniProtKB/TrEMBL
  ZINC TRANSPORTER ZIP6 UniProtKB/TrEMBL
Pfam Zip UniProtKB/TrEMBL
UniProt A0A0D9RZ98 ENTREZGENE, UniProtKB/TrEMBL