Xk (X-linked Kx blood group antigen, Kell and VPS13A binding protein) - Rat Genome Database

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Gene: Xk (X-linked Kx blood group antigen, Kell and VPS13A binding protein) Rattus norvegicus
Analyze
Symbol: Xk
Name: X-linked Kx blood group antigen, Kell and VPS13A binding protein
RGD ID: 1359650
Description: Predicted to enable protein-macromolecule adaptor activity. Predicted to be involved in amino acid transport. Predicted to act upstream of or within several processes, including intracellular monoatomic cation homeostasis; regulation of axon diameter; and skeletal muscle fiber development. Predicted to be located in endoplasmic reticulum membrane. Predicted to be active in plasma membrane. Human ortholog(s) of this gene implicated in McLeod syndrome and hematopoietic system disease. Orthologous to human XK (X-linked Kx blood group antigen, Kell and VPS13A binding protein); INTERACTS WITH 2,3,7,8-tetrachlorodibenzodioxine; 2,3,7,8-Tetrachlorodibenzofuran; 3-chloropropane-1,2-diol.
Type: protein-coding
RefSeq Status: VALIDATED
Previously known as: endoplasmic reticulum membrane adapter protein XK; Kell blood group precursor; Kell blood group precursor (mapped); Kell blood group precursor (McLeod phenotype); Kell blood group precursor (McLeod phenotype) homolog; LOC497078; membrane transport protein XK; X-linked Kx blood group; X-linked Kx blood group (McLeod syndrome); X-linked Kx blood group (McLeod syndrome) homolog; XK homolog; XK-related protein 1; Xk_mapped
RGD Orthologs
Human
Mouse
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Orthologs
More Info more info ...
Latest Assembly: mRatBN7.2 - mRatBN7.2 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr8X16,108,913 - 16,145,322 (-)NCBIGRCr8
mRatBN7.2X13,436,412 - 13,472,830 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 EnsemblX13,436,418 - 13,472,830 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_UtxX13,623,720 - 13,660,104 (-)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0X17,120,655 - 17,157,035 (-)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0X13,377,235 - 13,413,615 (-)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.0X14,497,376 - 14,534,479 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 EnsemblX14,498,119 - 14,534,473 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.0X15,278,669 - 15,315,169 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4X25,591,152 - 25,624,913 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.1X25,644,621 - 25,678,382 (-)NCBI
CeleraX13,951,523 - 13,985,552 (+)NCBICelera
Cytogenetic MapXq12NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene Ontology Annotations     Click to see Annotation Detail View

Biological Process

Cellular Component
endoplasmic reticulum membrane  (IEA,ISO,ISS)
plasma membrane  (IEA,ISO,ISS)

Molecular Function

References

References - curated
# Reference Title Reference Citation
1. Isolation of the gene for McLeod syndrome that encodes a novel membrane transport protein. Ho M, etal., Cell 1994 Jun 17;77(6):869-80.
2. OMIM Disease Annotation Pipeline OMIM Disease Annotation Pipeline
3. GOA pipeline RGD automated data pipeline
4. ClinVar Automated Import and Annotation Pipeline RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
5. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
6. Comprehensive gene review and curation RGD comprehensive gene curation
Additional References at PubMed
PMID:1300515   PMID:9593744   PMID:12477932   PMID:17379193   PMID:23122227   PMID:24405768  


Genomics

Comparative Map Data
Xk
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr8X16,108,913 - 16,145,322 (-)NCBIGRCr8
mRatBN7.2X13,436,412 - 13,472,830 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 EnsemblX13,436,418 - 13,472,830 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_UtxX13,623,720 - 13,660,104 (-)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0X17,120,655 - 17,157,035 (-)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0X13,377,235 - 13,413,615 (-)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.0X14,497,376 - 14,534,479 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 EnsemblX14,498,119 - 14,534,473 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.0X15,278,669 - 15,315,169 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4X25,591,152 - 25,624,913 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.1X25,644,621 - 25,678,382 (-)NCBI
CeleraX13,951,523 - 13,985,552 (+)NCBICelera
Cytogenetic MapXq12NCBI
XK
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38X37,685,791 - 37,732,130 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 EnsemblX37,685,791 - 37,732,130 (+)EnsemblGRCh38hg38GRCh38
GRCh37X37,545,044 - 37,591,383 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 36X37,430,052 - 37,476,322 (+)NCBINCBI36Build 36hg18NCBI36
Build 34X37,301,324 - 37,347,594NCBI
CeleraX41,682,795 - 41,729,061 (+)NCBICelera
Cytogenetic MapXp21.1NCBI
HuRefX35,290,888 - 35,336,107 (+)NCBIHuRef
CHM1_1X37,576,264 - 37,622,522 (+)NCBICHM1_1
T2T-CHM13v2.0X37,089,348 - 37,135,703 (+)NCBIT2T-CHM13v2.0
Xk
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39X9,139,023 - 9,179,484 (+)NCBIGRCm39GRCm39mm39
GRCm39 EnsemblX9,138,995 - 9,179,489 (+)EnsemblGRCm39 Ensembl
GRCm38X9,272,784 - 9,313,245 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 EnsemblX9,272,756 - 9,313,250 (+)EnsemblGRCm38mm10GRCm38
MGSCv37X8,849,910 - 8,890,371 (+)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv36X8,429,873 - 8,468,132 (+)NCBIMGSCv36mm8
CeleraX7,012,285 - 7,052,336 (+)NCBICelera
Cytogenetic MapXA1.1NCBI
cM MapX4.22NCBI
Xk
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_004955587668,070 - 728,959 (+)EnsemblChiLan1.0
ChiLan1.0NW_004955587668,871 - 725,829 (+)NCBIChiLan1.0ChiLan1.0
XK
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v2X39,334,500 - 39,381,063 (+)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan1X39,337,936 - 39,384,437 (+)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v0X30,136,046 - 30,182,541 (+)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.1X37,846,539 - 37,892,348 (+)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 EnsemblX37,846,539 - 37,892,348 (+)Ensemblpanpan1.1panPan2
XK
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1X32,453,404 - 32,498,145 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 EnsemblX32,453,570 - 32,495,110 (+)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_TashaX19,801,126 - 19,845,752 (+)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.0X32,491,214 - 32,543,437 (+)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 EnsemblX32,491,295 - 32,540,402 (+)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.1X32,578,961 - 32,624,840 (+)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.0X32,544,040 - 32,588,642 (+)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0X32,592,018 - 32,636,881 (+)NCBIUU_Cfam_GSD_1.0
Xk
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2X24,691,389 - 24,745,510 (+)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_0049365024,532,100 - 4,587,439 (+)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_0049365024,532,100 - 4,584,931 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
XK
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 EnsemblX33,544,731 - 33,602,574 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.1X33,544,287 - 33,602,576 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.2X37,205,690 - 37,263,628 (+)NCBISscrofa10.2Sscrofa10.2susScr3
XK
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Vero_WHO_p1.0NW_02366605638,148,973 - 38,193,937 (+)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Xk
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_00462476217,856,731 - 17,914,938 (-)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_00462476217,856,746 - 17,915,975 (-)NCBIHetGla_female_1.0HetGla 1.0hetGla2

Variants

.
Variants in Xk
213 total Variants
miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:809
Count of miRNA genes:326
Interacting mature miRNAs:436
Transcripts:ENSRNOT00000051135
Prediction methods:Microtar, Miranda, Pita, Targetscan
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
70165Bp64Blood pressure QTL 645.2arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)X144812931706553Rat
1298071Edpm12Estrogen-dependent pituitary mass QTL 123.2pituitary gland mass (VT:0010496)pituitary gland wet weight (CMO:0000853)X292789847927898Rat
731181Uae27Urinary albumin excretion QTL 272.70.0059urine albumin amount (VT:0002871)urine albumin excretion rate (CMO:0000757)X143491017Rat
631666Iddm5Insulin dependent diabetes mellitus QTL 5blood glucose amount (VT:0000188)plasma glucose level (CMO:0000042)X449454949494549Rat
10755455Coatc13Coat color QTL 130coat/hair pigmentation trait (VT:0010463)pigmented ventral coat/hair area to total ventral coat/hair area ratio (CMO:0001812)7440600049406000Rat
634325Bw13Body weight QTL 130body mass (VT:0001259)body weight (CMO:0000012)X144797220991088Rat
631204Gluco15Glucose level QTL 150.001blood glucose amount (VT:0000188)blood glucose level area under curve (AUC) (CMO:0000350)X162371522646544Rat

Markers in Region
DXWox20  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2X13,442,366 - 13,442,570 (-)MAPPERmRatBN7.2
Rnor_6.0X14,528,325 - 14,528,526NCBIRnor6.0
Rnor_5.0X15,309,015 - 15,309,216UniSTSRnor5.0
RGSC_v3.4X25,594,532 - 25,594,733UniSTSRGSC3.4
CeleraX13,981,485 - 13,981,686UniSTS
Cytogenetic MapXq13UniSTS
RH130134  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2X13,463,071 - 13,463,278 (-)MAPPERmRatBN7.2
Rnor_6.0X14,507,670 - 14,507,876NCBIRnor6.0
Rnor_5.0X15,288,360 - 15,288,566UniSTSRnor5.0
RGSC_v3.4X25,615,237 - 25,615,443UniSTSRGSC3.4
CeleraX13,960,968 - 13,961,174UniSTS
RH 3.4 MapX121.7UniSTS
Cytogenetic MapXq13UniSTS
RH143260  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2X13,440,088 - 13,440,193 (-)MAPPERmRatBN7.2
Rnor_6.0X14,530,700 - 14,530,804NCBIRnor6.0
Rnor_5.0X15,311,390 - 15,311,494UniSTSRnor5.0
CeleraX13,983,860 - 13,983,964UniSTS
RH 3.4 MapX125.1UniSTS
Cytogenetic MapXq13UniSTS


Expression

RNA-SEQ Expression

alimentary part of gastrointestinal system
appendage
circulatory system
ectoderm
endocrine system
endoderm
exocrine system
hemolymphoid system
hepatobiliary system
integumental system
mesenchyme
mesoderm
nervous system
renal system
reproductive system
respiratory system
9 11 49 113 91 90 59 25 59 6 218 97 93 45 60 31

Sequence


Ensembl Acc Id: ENSRNOT00000051135   ⟹   ENSRNOP00000039017
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 EnsemblX13,436,418 - 13,472,830 (-)Ensembl
Rnor_6.0 EnsemblX14,498,119 - 14,534,473 (+)Ensembl
Ensembl Acc Id: ENSRNOT00000092143   ⟹   ENSRNOP00000071189
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 EnsemblX14,498,283 - 14,534,431 (+)Ensembl
RefSeq Acc Id: NM_001012227   ⟹   NP_001012227
RefSeq Status: VALIDATED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8X16,108,913 - 16,145,322 (-)NCBI
mRatBN7.2X13,436,416 - 13,472,830 (-)NCBI
Rnor_6.0X14,498,223 - 14,532,391 (+)NCBI
Rnor_5.0X15,278,669 - 15,315,169 (+)NCBI
RGSC_v3.4X25,591,152 - 25,624,913 (-)RGD
CeleraX13,951,523 - 13,985,552 (+)RGD
Sequence:
RefSeq Acc Id: XM_039099957   ⟹   XP_038955885
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8X16,108,913 - 16,145,013 (-)NCBI
mRatBN7.2X13,436,412 - 13,472,519 (-)NCBI
Protein Sequences
Protein RefSeqs NP_001012227 (Get FASTA)   NCBI Sequence Viewer  
  XP_038955885 (Get FASTA)   NCBI Sequence Viewer  
GenBank Protein AAI07560 (Get FASTA)   NCBI Sequence Viewer  
  AAT07105 (Get FASTA)   NCBI Sequence Viewer  
Ensembl Protein ENSRNOP00000039017.4
GenBank Protein Q5GH61 (Get FASTA)   NCBI Sequence Viewer  
RefSeq Acc Id: NP_001012227   ⟸   NM_001012227
- UniProtKB: Q5GH61 (UniProtKB/Swiss-Prot),   F1LP18 (UniProtKB/TrEMBL),   Q3B7L3 (UniProtKB/TrEMBL)
- Sequence:
Ensembl Acc Id: ENSRNOP00000071189   ⟸   ENSRNOT00000092143
Ensembl Acc Id: ENSRNOP00000039017   ⟸   ENSRNOT00000051135
RefSeq Acc Id: XP_038955885   ⟸   XM_039099957
- Peptide Label: isoform X1
- UniProtKB: A6KU81 (UniProtKB/TrEMBL)

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-Q5GH61-F1-model_v2 AlphaFold Q5GH61 1-445 view protein structure

Transcriptome

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

Promoters
RGD ID:13701726
Promoter ID:EPDNEW_R12246
Type:initiation region
Name:Xk_1
Description:X-linked Kx blood group
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_6.0X14,498,154 - 14,498,214EPDNEW

Additional Information

Database Acc Id Source(s)
AGR Gene RGD:1359650 AgrOrtholog
BioCyc Gene G2FUF-2977 BioCyc
Ensembl Genes ENSRNOG00000003749 Ensembl, UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000051135.6 UniProtKB/TrEMBL
IMAGE_CLONE IMAGE:7933294 IMAGE-MGC_LOAD
InterPro XK-rel UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  XK-related_adapter UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
KEGG Report rno:497078 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
MGC_CLONE MGC:124512 IMAGE-MGC_LOAD
NCBI Gene 497078 ENTREZGENE
PANTHER MEMBRANE TRANSPORT PROTEIN XK UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  MEMBRANE TRANSPORT PROTEIN XK FAMILY MEMBER UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Pfam XK-related UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PhenoGen Xk PhenoGen
RatGTEx ENSRNOG00000003749 RatGTEx
UniProt A6KU81 ENTREZGENE, UniProtKB/TrEMBL
  F1LP18 ENTREZGENE
  Q3B7L3 ENTREZGENE, UniProtKB/TrEMBL
  Q5GH61 ENTREZGENE, UniProtKB/Swiss-Prot
UniProt Secondary F1LP18 UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2022-07-26 Xk  X-linked Kx blood group antigen, Kell and VPS13A binding protein  Xk  X-linked Kx blood group  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2014-06-25 Xk  X-linked Kx blood group  Xk  X-linked Kx blood group (McLeod syndrome)  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2012-06-26 Xk  X-linked Kx blood group (McLeod syndrome)  Xk  X-linked Kx blood group (McLeod syndrome) homolog  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2008-11-14 Xk  X-linked Kx blood group (McLeod syndrome) homolog  Xk  Kell blood group precursor (McLeod phenotype) homolog  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2007-10-22 Xk  Kell blood group precursor (McLeod phenotype) homolog  LOC497078  XK-related protein 1  Symbol and Name updated to reflect Human and Mouse nomenclature 1299863 APPROVED
2007-10-15 LOC497078  XK-related protein 1  Xk_mapped  Kell blood group precursor (mapped)  Data merged from RGD:3975 737654 APPROVED
2005-11-17 Xk_mapped  Kell blood group precursor (mapped)      Symbol and Name updated 1556543 APPROVED
2005-07-29 LOC497078  XK-related protein 1      Symbol and Name status set to provisional 70820 PROVISIONAL
2003-04-09 Xk  Kell blood group precursor    Kell blood group precursor (McLeod phenotype)  Name updated 629478 APPROVED
2002-06-10 Xk  Kell blood group precursor (McLeod phenotype)      Symbol and Name status set to approved 70586 APPROVED