Xylb (xylulokinase homolog (H. influenzae)) - Rat Genome Database
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Gene: Xylb (xylulokinase homolog (H. influenzae)) Mus musculus
Analyze
Symbol: Xylb
Name: xylulokinase homolog (H. influenzae)
RGD ID: 1615773
MGI Page MGI
Description: Predicted to have xylulokinase activity. Predicted to be involved in phosphorylation and xylulose metabolic process. Predicted to localize to cytosol. Orthologous to human XYLB (xylulokinase); PARTICIPATES IN pentose and glucuronate interconversion pathway; INTERACTS WITH 2,3,7,8-tetrachlorodibenzodioxine; 4-hydroxyphenyl retinamide; benzo[a]pyrene.
Type: protein-coding
RefSeq Status: VALIDATED
Also known as: AI132223; AI327421; xylulose kinase
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
GRCm399119,186,447 - 119,222,863 (+)NCBIGRCm39mm39
GRCm389119,357,381 - 119,393,797 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl9119,357,381 - 119,393,797 (+)EnsemblGRCm38mm10GRCm38
MGSCv379119,266,499 - 119,302,438 (+)NCBIGRCm37mm9NCBIm37
MGSCv369119,206,079 - 119,242,018 (+)NCBImm8
Celera9119,826,564 - 119,863,083 (+)NCBICelera
Cytogenetic Map9F3NCBI
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

Biological Process

Cellular Component
cytosol  (IBA)

Molecular Function

Molecular Pathway Annotations     Click to see Annotation Detail View
References

References - curated
1. Pipeline to import KEGG annotations from KEGG into RGD
2. RGD automated import pipeline for gene-chemical interactions
Additional References at PubMed
PMID:8889548   PMID:10349636   PMID:11042159   PMID:11076861   PMID:11217851   PMID:12466851   PMID:12477932   PMID:14610273   PMID:14681479   PMID:15489334   PMID:15782199   PMID:16141072  
PMID:16141073   PMID:21267068   PMID:21873635   PMID:31666509   PMID:32325033  


Genomics

Comparative Map Data
Xylb
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm399119,186,447 - 119,222,863 (+)NCBIGRCm39mm39
GRCm389119,357,381 - 119,393,797 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl9119,357,381 - 119,393,797 (+)EnsemblGRCm38mm10GRCm38
MGSCv379119,266,499 - 119,302,438 (+)NCBIGRCm37mm9NCBIm37
MGSCv369119,206,079 - 119,242,018 (+)NCBImm8
Celera9119,826,564 - 119,863,083 (+)NCBICelera
Cytogenetic Map9F3NCBI
XYLB
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38.p13 Ensembl338,346,760 - 38,421,348 (+)EnsemblGRCh38hg38GRCh38
GRCh38338,346,785 - 38,453,041 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh37338,388,251 - 38,456,467 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 36338,363,244 - 38,431,471 (+)NCBINCBI36hg18NCBI36
Build 34338,363,243 - 38,431,471NCBI
Celera338,323,884 - 38,392,347 (+)NCBI
Cytogenetic Map3p22.2NCBI
HuRef338,430,197 - 38,498,798 (+)NCBIHuRef
CHM1_1338,339,982 - 38,408,211 (+)NCBICHM1_1
Xylb
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Rnor_6.08128,041,875 - 128,076,951 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl8128,044,084 - 128,076,946 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.08127,248,438 - 127,283,712 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.48124,321,366 - 124,354,135 (+)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.18124,340,874 - 124,373,231 (+)NCBI
Celera8118,247,268 - 118,280,101 (+)NCBICelera
Cytogenetic Map8q32NCBI
Xylb
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_00495542725,492,505 - 25,528,740 (-)EnsemblChiLan1.0
ChiLan1.0NW_00495542725,492,505 - 25,528,674 (-)NCBIChiLan1.0ChiLan1.0
XYLB
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
PanPan1.1338,526,968 - 38,631,714 (+)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl338,526,988 - 38,592,086 (+)Ensemblpanpan1.1panPan2
Mhudiblu_PPA_v0338,244,960 - 38,349,616 (+)NCBIMhudiblu_PPA_v0panPan3
XYLB
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1 Ensembl238,122,197 - 8,170,447 (+)EnsemblCanFam3.1canFam3CanFam3.1
CanFam3.1238,123,041 - 8,171,803 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
Xylb
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
SpeTri2.0NW_00493647327,725,955 - 27,767,319 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
XYLB
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl1323,173,939 - 23,225,951 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.11323,173,855 - 23,225,583 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.21325,302,487 - 25,350,851 (-)NCBISscrofa10.2Sscrofa10.2susScr3
XYLB
(Chlorocebus sabaeus - African green monkey)
Vervet AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1 Ensembl151,005,340 - 1,069,275 (-)Ensembl
ChlSab1.1151,003,809 - 1,070,385 (-)NCBI
Xylb
(Heterocephalus glaber - naked mole-rat)
Molerat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla 1.0NW_0046247312,616,924 - 2,658,675 (-)NCBI

Position Markers
AI327421  
Mouse AssemblyChrPosition (strand)SourceJBrowse
GRCm389119,393,063 - 119,393,157UniSTSGRCm38
MGSCv379119,302,181 - 119,302,275UniSTSGRCm37
Celera9119,862,829 - 119,862,923UniSTS
Cytogenetic Map9F3UniSTS
Whitehead/MRC_RH91177.51UniSTS
AI132223  
Mouse AssemblyChrPosition (strand)SourceJBrowse
GRCm389119,393,063 - 119,393,153UniSTSGRCm38
MGSCv379119,302,181 - 119,302,271UniSTSGRCm37
Celera9119,862,829 - 119,862,919UniSTS
Cytogenetic Map9F3UniSTS
Whitehead/MRC_RH91177.51UniSTS


QTLs in Region (GRCm38)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
4141833W10q13_mweight 10 weeks QTL 13 (mouse)Not determined63332429120362868Mouse
4141545Tailaq2_mtail length adjusted QTL 2 (mouse)Not determined63332429120362868Mouse
1357635Splq4_mspleen weight QTL 4 (mouse)Not determined963332429120362868Mouse
1300549Bbaa17_mB. burgdorferi-associated arthritis 17 (mouse)Not determined986230401120230530Mouse
1302103Dob2_mdietary obesity 2 (mouse)Not determined986239845120289624Mouse
11251716Siim2_mstress induced immobility 2 (mouse)986748483120748483Mouse
12880422V25Dq6_mvitamin D inactive form serum level QTL 6 (mouse)987800000121800000Mouse
10412242Alpq8_malcohol preference QTL 8 (mouse)Not determined989284925123284925Mouse
1301649Psl1_mpromotion susceptibility QTL 1 (mouse)Not determined989412277123412396Mouse
18182932Metl3_mmetabolite locus 3, N-acetylglutamate (mouse)989563342123563342Mouse
12910770Splic1_mspleen iron content 1 (mouse)991413879124595110Mouse
12910772Lvic6_mliver iron content 6 (mouse)991413879124595110Mouse
12910773Splic3_mspleen iron content 3 (mouse)991413879124595110Mouse
1558767Skmw11_mskeletal muscle weight 11 (mouse)Not determined991641084124595110Mouse
13463474Hbbcq5_mhemoglobin concentration QTL 5 (mouse)991641084124595110Mouse
13463475Hctq7_mhematocrit QTL 7 (mouse)991641084124595110Mouse
13463477Rbc9_mred blood cell count 9 (mouse)991641084124595110Mouse
13463478Mchq18_mmean corpuscular hemoglobin QTL 18 (mouse)991641084124595110Mouse
13463480Mchcq2_mmean corpuscular hemoglobin concentration QTL 2 (mouse)991641084124595110Mouse
12904937Edlmmq9_mextensor digitorum longus muscle mass QTL 9 (mouse)991683173124595110Mouse
12904947Tammq7_mtibialis anterior muscle mass QTL 7 (mouse)991683173124595110Mouse
12904961Gmmq7_mgastrocnemius muscle mass QTL 7 (mouse)991683173124595110Mouse
1302001Bdln5_mbody length 5 (mouse)Not determined993762590124595110Mouse
1301484Bwq6_mbody weight (mouse)Not determined993762590124595110Mouse
14746992Manh67_mmandible shape 67 (mouse)994036768124595110Mouse
11537364Cnes5_mC. neoformans susceptibility locus 5 (mouse)996917590124595110Mouse
1301297Lcho1_mliver cholesterol 1 (mouse)Not determined9101060861124595110Mouse
1357627Tgq2_mtriglyceride QTL 2 (mouse)Not determined9102000187124595110Mouse
1357648Obq18_mobesity QTL 18 (mouse)Not determined9102000187124595110Mouse
1301789Pbwg4_mpostnatal body weight growth 4 (mouse)Not determined9103289445124595110Mouse
10412290Pvacm1l_mplasma vascular cell adhesion molecule 1 levels (mouse)Not determined9103289445124595110Mouse
12879896Berr3_mberghei resistance locus 3 (mouse)9103289445124595110Mouse

miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:852
Count of miRNA genes:491
Interacting mature miRNAs:578
Transcripts:ENSMUST00000039610
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

Nucleotide Sequences
RefSeq Transcripts NM_001033209 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  NM_001199568 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  NM_001359699 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_030243939 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_030243940 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
GenBank Nucleotide AC128702 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AC166052 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AK143476 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AK164186 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AK165440 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AK165518 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AK165759 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AK167735 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AK170197 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AK180117 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  BC025442 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  BC026406 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  BC080743 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  BC138244 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  BC138247 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles

Reference Sequences
RefSeq Acc Id: ENSMUST00000039610   ⟹   ENSMUSP00000047254
RefSeq Status:
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm38.p6 Ensembl9119,357,381 - 119,393,320 (+)Ensembl
RefSeq Acc Id: ENSMUST00000213383
RefSeq Status:
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm38.p6 Ensembl9119,378,191 - 119,393,325 (+)Ensembl
RefSeq Acc Id: ENSMUST00000215305
RefSeq Status:
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm38.p6 Ensembl9119,357,569 - 119,361,411 (+)Ensembl
RefSeq Acc Id: ENSMUST00000215822   ⟹   ENSMUSP00000150659
RefSeq Status:
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm38.p6 Ensembl9119,357,569 - 119,393,329 (+)Ensembl
RefSeq Acc Id: ENSMUST00000216838   ⟹   ENSMUSP00000151179
RefSeq Status:
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm38.p6 Ensembl9119,357,587 - 119,393,797 (+)Ensembl
RefSeq Acc Id: NM_001033209   ⟹   NP_001028381
RefSeq Status: VALIDATED
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm399119,186,447 - 119,222,863 (+)NCBI
GRCm389119,357,381 - 119,393,797 (+)NCBI
MGSCv379119,266,499 - 119,302,438 (+)RGD
Celera9119,826,564 - 119,863,560 (+)ENTREZGENE
cM Map9 ENTREZGENE
Sequence:
RefSeq Acc Id: NM_001199568   ⟹   NP_001186497
RefSeq Status: VALIDATED
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm399119,186,447 - 119,222,863 (+)NCBI
GRCm389119,357,381 - 119,393,797 (+)NCBI
Celera9119,826,564 - 119,863,560 (+)ENTREZGENE
cM Map9 ENTREZGENE
Sequence:
RefSeq Acc Id: NM_001359699   ⟹   NP_001346628
RefSeq Status: VALIDATED
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm399119,186,447 - 119,222,863 (+)NCBI
GRCm389119,357,381 - 119,393,797 (+)NCBI
Sequence:
RefSeq Acc Id: XM_030243939   ⟹   XP_030099799
RefSeq Status:
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm399119,190,669 - 119,222,399 (+)NCBI
GRCm389119,361,603 - 119,393,333 (+)NCBI
Sequence:
RefSeq Acc Id: XM_030243940   ⟹   XP_030099800
RefSeq Status:
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm399119,199,371 - 119,222,399 (+)NCBI
GRCm389119,370,305 - 119,393,333 (+)NCBI
Sequence:
Reference Sequences
RefSeq Acc Id: NP_001028381   ⟸   NM_001033209
- Peptide Label: isoform 1
- UniProtKB: Q3TNA1 (UniProtKB/Swiss-Prot),   Q3TMS3 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: NP_001186497   ⟸   NM_001199568
- Peptide Label: isoform 2
- UniProtKB: Q3TNA1 (UniProtKB/Swiss-Prot),   Q3TMS3 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: NP_001346628   ⟸   NM_001359699
- Peptide Label: isoform 3
RefSeq Acc Id: XP_030099799   ⟸   XM_030243939
- Peptide Label: isoform X1
RefSeq Acc Id: XP_030099800   ⟸   XM_030243940
- Peptide Label: isoform X2
RefSeq Acc Id: ENSMUSP00000151179   ⟸   ENSMUST00000216838
RefSeq Acc Id: ENSMUSP00000047254   ⟸   ENSMUST00000039610
RefSeq Acc Id: ENSMUSP00000150659   ⟸   ENSMUST00000215822
Protein Domains
FGGY_C   FGGY_N

Promoters
RGD ID:6845336
Promoter ID:MM_KWN:59133
Type:CpG-Island
SO ACC ID:SO:0000170
Source:MPROMDB
Tissues & Cell Lines:3T3L1_Day0,   BoneMarrow_0Hour,   BoneMarrow_2Hour,   BoneMarrow_4Hour,   Brain,   ES_Cell,   Kidney,   Liver,   Lung
Transcripts:ENSMUST00000039610,   UC009SAU.1,   UC009SAV.1
Position:
Mouse AssemblyChrPosition (strand)Source
MGSCv369119,266,461 - 119,266,961 (+)MPROMDB
RGD ID:6845340
Promoter ID:MM_KWN:59134
Type:Non-CpG
SO ACC ID:SO:0000170
Source:MPROMDB
Tissues & Cell Lines:Kidney,   Liver
Transcripts:UC009SAW.1
Position:
Mouse AssemblyChrPosition (strand)Source
MGSCv369119,287,166 - 119,287,712 (+)MPROMDB
RGD ID:8671192
Promoter ID:EPDNEW_M13627
Type:multiple initiation site
Name:Xylb_1
Description:Mus musculus xylulokinase homolog , transcript variant 3, mRNA.
SO ACC ID:SO:0000170
Source:EPDNEW (Eukaryotic Promoter Database, http://epd.vital-it.ch/)
Alternative Promoters:null; see alsoEPDNEW_M13628  
Experiment Methods:Single-end sequencing.
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm389119,357,585 - 119,357,645EPDNEW
RGD ID:8671194
Promoter ID:EPDNEW_M13628
Type:single initiation site
Name:Xylb_2
Description:Mus musculus xylulokinase homolog , transcript variant 3, mRNA.
SO ACC ID:SO:0000170
Source:EPDNEW (Eukaryotic Promoter Database, http://epd.vital-it.ch/)
Alternative Promoters:null; see alsoEPDNEW_M13627  
Experiment Methods:Single-end sequencing.
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm389119,368,075 - 119,368,135EPDNEW

Additional Information

Database Acc Id Source(s)
AGR Gene MGI:2142985 AgrOrtholog
Ensembl Genes ENSMUSG00000035769 Ensembl, ENTREZGENE, UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Ensembl Protein ENSMUSP00000047254 ENTREZGENE, UniProtKB/Swiss-Prot
  ENSMUSP00000150659 UniProtKB/TrEMBL
  ENSMUSP00000151179 UniProtKB/TrEMBL
Ensembl Transcript ENSMUST00000039610 ENTREZGENE, UniProtKB/Swiss-Prot
  ENSMUST00000213383 ENTREZGENE
  ENSMUST00000215822 UniProtKB/TrEMBL
  ENSMUST00000216838 UniProtKB/TrEMBL
InterPro ATPase_NBD UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Carb_kinase_FGGY UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Carb_kinase_FGGY_C UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Carb_kinase_FGGY_N UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  D-XK_euk UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
KEGG Report mmu:102448 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
MGD MGI:2142985 ENTREZGENE
NCBI Gene 102448 ENTREZGENE
Pfam FGGY_C UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  FGGY_N UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PhenoGen Xylb PhenoGen
PIRSF GlpK UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Superfamily-SCOP SSF53067 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
UniGene Mm.219497 ENTREZGENE
UniProt A0A1L1SUA8_MOUSE UniProtKB/TrEMBL
  Q3TMS3 ENTREZGENE, UniProtKB/TrEMBL
  Q3TNA1 ENTREZGENE
  Q66JV3_MOUSE UniProtKB/TrEMBL
  Q8R0U8_MOUSE UniProtKB/TrEMBL
  XYLB_MOUSE UniProtKB/Swiss-Prot
UniProt Secondary B2RR66 UniProtKB/Swiss-Prot
  Q8R156 UniProtKB/Swiss-Prot