Xk (X-linked Kx blood group) - Rat Genome Database

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Gene: Xk (X-linked Kx blood group) Rattus norvegicus
Analyze
Symbol: Xk
Name: X-linked Kx blood group
RGD ID: 1359650
Description: Predicted to be involved in amino acid transport. Predicted to act upstream of or within several processes, including cellular divalent inorganic cation homeostasis; regulation of axon diameter; and skeletal muscle fiber development. Predicted to be integral component of 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); INTERACTS WITH 2,3,7,8-Tetrachlorodibenzofuran; 3-chloropropane-1,2-diol; acetamide.
Type: protein-coding
RefSeq Status: VALIDATED
Also known as: 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 (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 Genes
More Info more info ...
Latest Assembly: Rnor_6.0 - RGSC Genome Assembly v6.0
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.2X13,436,412 - 13,472,830 (-)NCBImRatBN7.2
Rnor_6.0 EnsemblX14,498,119 - 14,534,473 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_6.0X14,497,376 - 14,534,479 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_5.0X15,278,669 - 15,315,169 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4X25,591,152 - 25,624,913 (-)NCBIRGSC3.4rn4RGSC3.4
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

Molecular Function

References

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
mRatBN7.2X13,436,412 - 13,472,830 (-)NCBImRatBN7.2
Rnor_6.0 EnsemblX14,498,119 - 14,534,473 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_6.0X14,497,376 - 14,534,479 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_5.0X15,278,669 - 15,315,169 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4X25,591,152 - 25,624,913 (-)NCBIRGSC3.4rn4RGSC3.4
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
GRCh38.p13 EnsemblX37,685,791 - 37,732,130 (+)EnsemblGRCh38hg38GRCh38
GRCh38X37,685,686 - 37,732,130 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh37X37,545,044 - 37,591,383 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 36X37,430,052 - 37,476,322 (+)NCBINCBI36hg18NCBI36
Build 34X37,301,324 - 37,347,594NCBI
CeleraX41,682,795 - 41,729,061 (+)NCBI
Cytogenetic MapXp21.1NCBI
HuRefX35,290,888 - 35,336,107 (+)NCBIHuRef
CHM1_1X37,576,264 - 37,622,522 (+)NCBICHM1_1
Xk
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39X9,139,023 - 9,179,484 (+)NCBIGRCm39mm39
GRCm39 EnsemblX9,138,995 - 9,179,489 (+)Ensembl
GRCm38X9,272,784 - 9,313,245 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 EnsemblX9,272,756 - 9,313,250 (+)EnsemblGRCm38mm10GRCm38
MGSCv37X8,849,910 - 8,890,371 (+)NCBIGRCm37mm9NCBIm37
MGSCv36X8,429,873 - 8,468,132 (+)NCBImm8
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
PanPan1.1X37,846,539 - 37,892,348 (+)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 EnsemblX37,846,539 - 37,892,348 (+)Ensemblpanpan1.1panPan2
Mhudiblu_PPA_v0X30,136,046 - 30,182,541 (+)NCBIMhudiblu_PPA_v0panPan3
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 (+)NCBI
ROS_Cfam_1.0X32,491,214 - 32,543,437 (+)NCBI
UMICH_Zoey_3.1X32,578,961 - 32,624,840 (+)NCBI
UNSW_CanFamBas_1.0X32,544,040 - 32,588,642 (+)NCBI
UU_Cfam_GSD_1.0X32,592,018 - 32,636,881 (+)NCBI
Xk
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2X24,691,389 - 24,745,510 (+)NCBI
SpeTri2.0NW_0049365024,532,100 - 4,584,931 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
XK
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 EnsemblX33,544,730 - 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 (+)NCBI
Xk
(Heterocephalus glaber - naked mole-rat)
Naked Mole-rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla 1.0NW_00462476217,856,746 - 17,915,975 (-)NCBI

Position Markers
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


QTLs in Region (Rnor_6.0)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
731181Uae27Urinary albumin excretion QTL 272.70.0059urine albumin amount (VT:0002871)urine albumin excretion rate (CMO:0000757)X144092703Rat
634325Bw13Body weight QTL 130body mass (VT:0001259)body weight (CMO:0000012)X166245321592783Rat
70165Bp64Blood pressure QTL 645.2arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)X166260933443848Rat
631204Gluco15Glucose level QTL 150.001blood glucose amount (VT:0000188)blood glucose level area under curve (AUC) (CMO:0000350)X183816624331837Rat
1298071Edpm12Estrogen-dependent pituitary mass QTL 123.2pituitary gland mass (VT:0010496)pituitary gland wet weight (CMO:0000853)X428214049282140Rat
631666Iddm5Insulin dependent diabetes mellitus QTL 5blood glucose amount (VT:0000188)plasma glucose level (CMO:0000042)X595407850954078Rat

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.


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 exocrine system hemolymphoid system hepatobiliary system integumental system musculoskeletal system nervous system renal system reproductive system respiratory system appendage
High
Medium 1 10 14 14 2 14
Low 2 33 43 27 17 27 8 11 74 35 41 10 8
Below cutoff 1

Sequence


Reference Sequences
RefSeq Acc Id: ENSRNOT00000051135   ⟹   ENSRNOP00000039017
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 EnsemblX14,498,119 - 14,534,473 (+)Ensembl
RefSeq Acc Id: ENSRNOT00000092143   ⟹   ENSRNOP00000071189
RefSeq Status:
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
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
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
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  
  Q5GH61 (Get FASTA)   NCBI Sequence Viewer  
Reference Sequences
RefSeq Acc Id: NP_001012227   ⟸   NM_001012227
- Sequence:
RefSeq Acc Id: ENSRNOP00000071189   ⟸   ENSRNOT00000092143
RefSeq Acc Id: ENSRNOP00000039017   ⟸   ENSRNOT00000051135
RefSeq Acc Id: XP_038955885   ⟸   XM_039099957
- Peptide Label: isoform X1

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

Strain Variation

Strain Sequence Variants (Rnor 6.0)
ACI/EurMcwi (MCW)
Visual CSV TAB Printer
Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
ACI/EurMcwi (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
ACI/N (MCW)
Visual CSV TAB Printer
Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
BBDP/Wor (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
BN/SsN (MCW)
Visual CSV TAB Printer
Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
Buf/N (MCW)
Visual CSV TAB Printer
Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
COP/CrCrl (MCW & UW)
Visual CSV TAB Printer
Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
University of Wisconsin (Dr. James Shull)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Charles River Laboratories
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob) and UW Madison (Dr. James Shull)
F344/NCrl (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
F344/NRrrc (MCW)
Visual CSV TAB Printer
Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
FHH/EurMcwi (MCW)
Visual CSV TAB Printer
Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
FHH/EurMcwi (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
FHL/EurMcwi (MCW)
Visual CSV TAB Printer
Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
FHL/EurMcwi (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
GH/OmrMcwi (MCW)
Visual CSV TAB Printer
Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
GK/Ox (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LE/Stm (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LEW/Crl (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LEW/NCrlBR (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LH/MavRrrc (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LL/MavRrrc (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LN/MavRrrc (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
M520/N (MCW)
Visual CSV TAB Printer
Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
MHS/Gib (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
MNS/Gib (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
MR/N (MCW)
Visual CSV TAB Printer
Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
SBH/Ygl (MCW)
Visual CSV TAB Printer
Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: SBH/Ygl sequenced by MCW
SBH/Ygl (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SBN/Ygl (MCW)
Visual CSV TAB Printer
Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: SBN/Ygl sequenced by MCW
SBN/Ygl (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SHR/NHsd (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SHRSP/Gcrc (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SR/JrHsd (MCW)
Visual CSV TAB Printer
Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Harlan Laboratories
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
SR/JrHsd (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SS/Jr (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SS/JrHsdMcwi (MCW)
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Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
SS/JrHsdMcwi (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
WAG/Rij (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
WKY/Gcrc (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
WKY/N (MCW)
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Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
WKY/NCrl (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
WKY/NHsd (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
WN/N (MCW)
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Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin

Additional Information

Database Acc Id Source(s)
AGR Gene RGD:1359650 AgrOrtholog
Ensembl Genes ENSRNOG00000003749 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Protein ENSRNOP00000039017 UniProtKB/TrEMBL
  ENSRNOP00000071189 UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000051135 UniProtKB/TrEMBL
  ENSRNOT00000092143 UniProtKB/TrEMBL
IMAGE_CLONE IMAGE:7933294 IMAGE-MGC_LOAD
InterPro XK-rel UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
KEGG Report rno:497078 UniProtKB/Swiss-Prot
MGC_CLONE MGC:124512 IMAGE-MGC_LOAD
NCBI Gene 497078 ENTREZGENE
Pfam XK-related UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PhenoGen Xk PhenoGen
UniProt Q3B7L3_RAT 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
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 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