Kxd1 (KxDL motif containing 1) - Rat Genome Database
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Gene: Kxd1 (KxDL motif containing 1) Mus musculus
Analyze
Symbol: Kxd1
Name: KxDL motif containing 1
RGD ID: 1622240
MGI Page MGI
Description: Involved in vesicle-mediated transport. Colocalizes with BLOC-1 complex. Used to study Hermansky-Pudlak syndrome. Orthologous to human KXD1 (KxDL motif containing 1); INTERACTS WITH 2,3',4,4',5-Pentachlorobiphenyl; tetrachloromethane; benzo[a]pyrene (ortholog).
Type: protein-coding
RefSeq Status: VALIDATED
Also known as: 0610030B01Rik; 2810422J05Rik; C78305; hypothetical protein LOC75620; kxDL motif-containing protein 1; UPF0459 protein C19orf50 homolog
RGD Orthologs
Human
Rat
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Genes
More Info more info ...
Latest Assembly: GRCm38 - Mouse Genome Assembly GRCm38
Position:
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39870,966,046 - 70,975,830 (-)NCBIGRCm39mm39
GRCm38870,513,396 - 70,523,180 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl870,508,272 - 70,527,956 (-)EnsemblGRCm38mm10GRCm38
MGSCv37873,037,295 - 73,047,079 (-)NCBIGRCm37mm9NCBIm37
MGSCv36873,442,375 - 73,452,456 (-)NCBImm8
Celera873,069,814 - 73,079,598 (-)NCBICelera
Cytogenetic Map8B3.3NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Disease Annotations     Click to see Annotation Detail View

Gene-Chemical Interaction Annotations     Click to see Annotation Detail View
Gene Ontology Annotations     Click to see Annotation Detail View

Biological Process

Cellular Component
BLOC-1 complex  (IBA,IDA)
BORC complex  (IBA,ISO)
lysosome  (IEA)
membrane  (IEA)

Molecular Function

Phenotype Annotations     Click to see Annotation Detail View

Mammalian Phenotype
References

Additional References at PubMed
PMID:10349636   PMID:10725249   PMID:10922068   PMID:11042159   PMID:11076861   PMID:11217851   PMID:12466851   PMID:12477932   PMID:14610273   PMID:15782199   PMID:16141072   PMID:16141073  
PMID:17967808   PMID:18590716   PMID:18799693   PMID:21873635   PMID:22554196   PMID:27719760  


Genomics

Comparative Map Data
Kxd1
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39870,966,046 - 70,975,830 (-)NCBIGRCm39mm39
GRCm38870,513,396 - 70,523,180 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl870,508,272 - 70,527,956 (-)EnsemblGRCm38mm10GRCm38
MGSCv37873,037,295 - 73,047,079 (-)NCBIGRCm37mm9NCBIm37
MGSCv36873,442,375 - 73,452,456 (-)NCBImm8
Celera873,069,814 - 73,079,598 (-)NCBICelera
Cytogenetic Map8B3.3NCBI
KXD1
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38.p13 Ensembl1918,557,762 - 18,569,387 (+)EnsemblGRCh38hg38GRCh38
GRCh381918,557,762 - 18,569,381 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh371918,668,572 - 18,680,197 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 361918,529,604 - 18,541,188 (+)NCBINCBI36hg18NCBI36
Celera1918,570,781 - 18,582,406 (+)NCBI
Cytogenetic Map19p13.11NCBI
HuRef1918,231,216 - 18,242,793 (+)NCBIHuRef
CHM1_11918,668,755 - 18,680,395 (+)NCBICHM1_1
Kxd1
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Rnor_6.01620,652,863 - 20,666,581 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1620,657,099 - 20,666,579 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01620,508,327 - 20,522,060 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41619,413,529 - 19,423,011 (+)NCBIRGSC3.4rn4RGSC3.4
Celera1619,098,221 - 19,107,703 (+)NCBICelera
Cytogenetic Map16p14NCBI
Kxd1
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049555243,006,147 - 3,018,772 (-)EnsemblChiLan1.0
ChiLan1.0NW_0049555243,010,997 - 3,018,309 (-)NCBIChiLan1.0ChiLan1.0
KXD1
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
PanPan1.11919,005,136 - 19,016,552 (+)NCBIpanpan1.1PanPan1.1panPan2
Mhudiblu_PPA_v01918,034,887 - 18,046,603 (+)NCBIMhudiblu_PPA_v0panPan3
KXD1
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1 Ensembl2044,481,557 - 44,489,188 (-)EnsemblCanFam3.1canFam3CanFam3.1
CanFam3.12044,480,634 - 44,489,287 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
Kxd1
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
SpeTri2.0NW_0049365962,711,326 - 2,719,839 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
KXD1
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1259,242,301 - 59,250,893 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.2259,051,909 - 59,060,504 (+)NCBISscrofa10.2Sscrofa10.2susScr3
KXD1
(Chlorocebus sabaeus - African green monkey)
Vervet AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1 Ensembl617,028,819 - 17,037,867 (+)Ensembl
ChlSab1.1617,028,785 - 17,037,871 (+)NCBI
Kxd1
(Heterocephalus glaber - naked mole-rat)
Molerat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla 1.0NW_0046249081,737,166 - 1,744,918 (+)NCBI

Position Markers
BB157005  
Mouse AssemblyChrPosition (strand)SourceJBrowse
GRCm38870,514,579 - 70,514,682UniSTSGRCm38
MGSCv37873,038,478 - 73,038,581UniSTSGRCm37
Celera873,070,997 - 73,071,100UniSTS
Cytogenetic Map8B3.3UniSTS
Whitehead/MRC_RH8743.1UniSTS
RH126344  
Mouse AssemblyChrPosition (strand)SourceJBrowse
GRCm38870,513,406 - 70,513,604UniSTSGRCm38
MGSCv37873,037,305 - 73,037,503UniSTSGRCm37
Celera873,069,824 - 73,070,022UniSTS
Cytogenetic Map8B3.3UniSTS


QTLs in Region (GRCm38)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
1558870Eae36_mexperimental allergic encephalomyelitis susceptibility 36 (mouse)Not determined81472316071045600Mouse
1357811Orq3_movulation rate QTL 3 (mouse)Not determined83201654471287993Mouse
4141437W10q14_mweight 10 weeks QTL 14 (mouse)Not determined3201654471287993Mouse
4141172W6q9_mweight 6 weeks QTL 9 (mouse)Not determined3201654471287993Mouse
4140966Egq12_mearly growth QTL 12 (mouse)Not determined3201654471287993Mouse
4140967Bmd39_mbone mineral density 39 (mouse)Not determined832016544117238700Mouse
1558875Eae31_mexperimental allergic encephalomyelitis susceptibility 31 (mouse)Not determined834642776114837007Mouse
1301013Capsq4_mcapsaicin sensitivity related QTL 4 (mouse)Not determined83616300092728652Mouse
27226754Femd6_mfemur midshaft diameter 6, 10 week (mouse)837400000109600000Mouse
12904744Carcdq1_mcardiac collagen deposition QTL 1 (mouse)83970925694689598Mouse
1301544Iba3_minduction of brown adipocytes 3 (mouse)Not determined84429488078295025Mouse
1301717Adip4_madiposity 4 (mouse)Not determined84763703081637146Mouse
10766453Char11_mP. chabaudi malaria resistance QTL 11 (mouse)84763703081637146Mouse
1301441Skull11_mskull morphology 11 (mouse)Not determined84773713481737254Mouse
1357715Alaa3_malopecia areata 3 (mouse)Not determined84879293982793021Mouse
14746987Manh64_mmandible shape 64 (mouse)85005330684053306Mouse
14747005Mancz7_mmandible centroid size 7 (mouse)85005330684053306Mouse
14700686Civq3_mcerebral infarct volume QTL 3 (mouse)85188219185882191Mouse
1301506Aevm1_mautoimmune extremity vasculitis in MRL mice 1 (mouse)Not determined85428781788287993Mouse
1301952Im3_mimmunoregulatory 3 (mouse)Not determined85470661488706763Mouse
10412287Carg3_mCandida albicans resistance gene 3 (mouse)Not determined85554502889545028Mouse
11353828Gf7_mgonadal fat pad weight 7 (mouse)85820147992201479Mouse
10043975Obq31_mobesity QTL 31 (mouse)Not determined85840977692409776Mouse
1301688Orch6_mautoimmune orchitis resistance 6 (mouse)Not determined86078685094786976Mouse
4141285Tgq18_mtriglyceride QTL 18 (mouse)Not determined6346010797460107Mouse
4141797Skmw16_mskeletal muscle weight 16 (mouse)Not determined86393954797939696Mouse
1357787Vtbt5_mvertebral trabecular bone trait 5 (mouse)Not determined86535776899357920Mouse
10043992Hbnr11_mHeligmosomoides bakeri nematode resistance 11 (mouse)Not determined86560020799600347Mouse
10766466Char12_mP. chabaudi malaria resistance QTL 12 (mouse)86826982782600347Mouse
1301767Fcsa2_mfemoral cross-sectional area 2 (mouse)Not determined870305375104305495Mouse
4142283Imraq2_mimmune response to AAV2 QTL 2 (mouse)Not determined870305375104305495Mouse

miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:1645
Count of miRNA genes:619
Interacting mature miRNAs:733
Transcripts:ENSMUST00000093456, ENSMUST00000117580, ENSMUST00000118850, ENSMUST00000121623, ENSMUST00000132867, ENSMUST00000137610, ENSMUST00000138260, ENSMUST00000138586, ENSMUST00000155677
Prediction methods:Miranda, Rnahybrid, 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


Sequence


Reference Sequences
RefSeq Acc Id: ENSMUST00000093456   ⟹   ENSMUSP00000091165
RefSeq Status:
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm38.p6 Ensembl870,513,396 - 70,523,180 (-)Ensembl
RefSeq Acc Id: ENSMUST00000117580   ⟹   ENSMUSP00000112561
RefSeq Status:
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm38.p6 Ensembl870,514,690 - 70,527,956 (-)Ensembl
RefSeq Acc Id: ENSMUST00000118850   ⟹   ENSMUSP00000113816
RefSeq Status:
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm38.p6 Ensembl870,513,604 - 70,523,279 (-)Ensembl
RefSeq Acc Id: ENSMUST00000121623   ⟹   ENSMUSP00000113804
RefSeq Status:
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm38.p6 Ensembl870,508,272 - 70,523,163 (-)Ensembl
RefSeq Acc Id: ENSMUST00000132867   ⟹   ENSMUSP00000123679
RefSeq Status:
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm38.p6 Ensembl870,518,411 - 70,527,783 (-)Ensembl
RefSeq Acc Id: ENSMUST00000137610   ⟹   ENSMUSP00000121539
RefSeq Status:
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm38.p6 Ensembl870,515,395 - 70,523,090 (-)Ensembl
RefSeq Acc Id: ENSMUST00000138260   ⟹   ENSMUSP00000123438
RefSeq Status:
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm38.p6 Ensembl870,508,450 - 70,527,956 (-)Ensembl
RefSeq Acc Id: ENSMUST00000138586
RefSeq Status:
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm38.p6 Ensembl870,519,071 - 70,523,104 (-)Ensembl
RefSeq Acc Id: ENSMUST00000155677   ⟹   ENSMUSP00000123548
RefSeq Status:
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm38.p6 Ensembl870,514,127 - 70,523,180 (-)Ensembl
RefSeq Acc Id: NM_029366   ⟹   NP_083642
RefSeq Status: VALIDATED
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39870,966,046 - 70,975,830 (-)NCBI
GRCm38870,513,396 - 70,523,180 (-)ENTREZGENE
MGSCv37873,037,295 - 73,047,079 (-)RGD
Celera873,069,814 - 73,079,598 (-)RGD
cM Map8 ENTREZGENE
Sequence:
Protein Sequences
Protein RefSeqs NP_083642 (Get FASTA)   NCBI Sequence Viewer  
GenBank Protein AAH48938 (Get FASTA)   NCBI Sequence Viewer  
  Q80XH1 (Get FASTA)   NCBI Sequence Viewer  
Reference Sequences
RefSeq Acc Id: NP_083642   ⟸   NM_029366
- UniProtKB: Q80XH1 (UniProtKB/Swiss-Prot)
- Sequence:
RefSeq Acc Id: ENSMUSP00000123438   ⟸   ENSMUST00000138260
RefSeq Acc Id: ENSMUSP00000113816   ⟸   ENSMUST00000118850
RefSeq Acc Id: ENSMUSP00000123679   ⟸   ENSMUST00000132867
RefSeq Acc Id: ENSMUSP00000091165   ⟸   ENSMUST00000093456
RefSeq Acc Id: ENSMUSP00000121539   ⟸   ENSMUST00000137610
RefSeq Acc Id: ENSMUSP00000112561   ⟸   ENSMUST00000117580
RefSeq Acc Id: ENSMUSP00000123548   ⟸   ENSMUST00000155677
RefSeq Acc Id: ENSMUSP00000113804   ⟸   ENSMUST00000121623
Protein Domains
KxDL   Ubiquitin-like

Promoters
RGD ID:8667319
Promoter ID:EPDNEW_M11690
Type:multiple initiation site
Name:Kxd1_1
Description:Mus musculus KxDL motif containing 1 , mRNA.
SO ACC ID:SO:0000170
Source:EPDNEW (Eukaryotic Promoter Database, http://epd.vital-it.ch/)
Experiment Methods:Single-end sequencing.
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm38870,523,098 - 70,523,158EPDNEW

Additional Information

Database Acc Id Source(s)
AGR Gene MGI:1922870 AgrOrtholog
Ensembl Genes ENSMUSG00000055553 Ensembl, ENTREZGENE, UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Ensembl Protein ENSMUSP00000091165 ENTREZGENE, UniProtKB/Swiss-Prot
  ENSMUSP00000112561 UniProtKB/TrEMBL
  ENSMUSP00000113804 UniProtKB/TrEMBL
  ENSMUSP00000113816 UniProtKB/TrEMBL
  ENSMUSP00000121539 UniProtKB/TrEMBL
  ENSMUSP00000123438 UniProtKB/TrEMBL
  ENSMUSP00000123548 UniProtKB/TrEMBL
  ENSMUSP00000123679 UniProtKB/TrEMBL
Ensembl Transcript ENSMUST00000093456 ENTREZGENE, UniProtKB/Swiss-Prot
  ENSMUST00000117580 UniProtKB/TrEMBL
  ENSMUST00000118850 UniProtKB/TrEMBL
  ENSMUST00000121623 UniProtKB/TrEMBL
  ENSMUST00000132867 UniProtKB/TrEMBL
  ENSMUST00000137610 UniProtKB/TrEMBL
  ENSMUST00000138260 UniProtKB/TrEMBL
  ENSMUST00000155677 UniProtKB/TrEMBL
Gene3D-CATH 2.20.28.70 UniProtKB/TrEMBL
InterPro KXD1-like UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  L40e_sf UniProtKB/TrEMBL
  Ribosomal_L40e UniProtKB/TrEMBL
  Ribosomal_zn-bd UniProtKB/TrEMBL
  Ubiquitin UniProtKB/TrEMBL
  Ubiquitin-rel_dom UniProtKB/TrEMBL
  Ubiquitin_CS UniProtKB/TrEMBL
  Ubiquitin_subgr UniProtKB/TrEMBL
  Uncharacterised_KxDL UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
KEGG Report mmu:75620 UniProtKB/Swiss-Prot
MGD MGI:1922870 ENTREZGENE
NCBI Gene 75620 ENTREZGENE
PANTHER PTHR13511 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Pfam KxDL UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Ribosomal_L40e UniProtKB/TrEMBL
  ubiquitin UniProtKB/TrEMBL
PhenoGen Kxd1 PhenoGen
PRINTS UBIQUITIN UniProtKB/TrEMBL
PROSITE UBIQUITIN_1 UniProtKB/TrEMBL
  UBIQUITIN_2 UniProtKB/TrEMBL
SMART Ribosomal_L40e UniProtKB/TrEMBL
  UBQ UniProtKB/TrEMBL
Superfamily-SCOP SSF54236 UniProtKB/TrEMBL
  SSF57829 UniProtKB/TrEMBL
UniGene Mm.482129 ENTREZGENE
UniProt D3YWA5_MOUSE UniProtKB/TrEMBL
  D3YXX6_MOUSE UniProtKB/TrEMBL
  D3Z2M8_MOUSE UniProtKB/TrEMBL
  E9Q4P0_MOUSE UniProtKB/TrEMBL
  E9QNP0_MOUSE UniProtKB/TrEMBL
  G3X9Z9_MOUSE UniProtKB/TrEMBL
  KXDL1_MOUSE UniProtKB/Swiss-Prot, ENTREZGENE


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2012-11-20 Kxd1  KxDL motif containing 1  2810422J05Rik  RIKEN cDNA 2810422J05 gene  Symbol and/or name change 5135510 APPROVED