Incidental Mutation 'R7648:Xcr1'
ID 590649
Institutional Source Beutler Lab
Gene Symbol Xcr1
Ensembl Gene ENSMUSG00000060509
Gene Name chemokine (C motif) receptor 1
Synonyms GPR5, C motif-1/lymphotactin receptor, Ccxcr1, XCR1
MMRRC Submission 045726-MU
Accession Numbers
Essential gene? Probably non essential (E-score: 0.078) question?
Stock # R7648 (G1)
Quality Score 225.009
Status Validated
Chromosome 9
Chromosomal Location 123681380-123691094 bp(-) (GRCm39)
Type of Mutation missense
DNA Base Change (assembly) T to C at 123685657 bp (GRCm39)
Zygosity Heterozygous
Amino Acid Change Glutamic Acid to Glycine at position 35 (E35G)
Ref Sequence ENSEMBL: ENSMUSP00000138255 (fasta)
Gene Model predicted gene model for transcript(s): [ENSMUST00000084715] [ENSMUST00000167595] [ENSMUST00000182350] [ENSMUST00000184082]
AlphaFold Q9R0M1
Predicted Effect probably benign
Transcript: ENSMUST00000084715
SMART Domains Protein: ENSMUSP00000081764
Gene: ENSMUSG00000025241

DomainStartEndE-ValueType
Pfam:RUN 19 167 4.7e-12 PFAM
low complexity region 196 206 N/A INTRINSIC
coiled coil region 223 270 N/A INTRINSIC
coiled coil region 348 1110 N/A INTRINSIC
FYVE 1124 1191 2.69e-16 SMART
PDB:1OLM|E 1343 1428 1e-5 PDB
Predicted Effect probably benign
Transcript: ENSMUST00000167595
SMART Domains Protein: ENSMUSP00000133222
Gene: ENSMUSG00000025241

DomainStartEndE-ValueType
Pfam:RUN 20 167 7.8e-12 PFAM
low complexity region 196 206 N/A INTRINSIC
coiled coil region 223 270 N/A INTRINSIC
coiled coil region 348 1110 N/A INTRINSIC
FYVE 1124 1191 2.69e-16 SMART
PDB:1OLM|E 1343 1428 1e-5 PDB
Predicted Effect possibly damaging
Transcript: ENSMUST00000182350
AA Change: E35G

PolyPhen 2 Score 0.539 (Sensitivity: 0.88; Specificity: 0.90)
SMART Domains Protein: ENSMUSP00000138255
Gene: ENSMUSG00000060509
AA Change: E35G

DomainStartEndE-ValueType
low complexity region 48 59 N/A INTRINSIC
Pfam:7tm_1 60 295 1.9e-45 PFAM
Predicted Effect probably benign
Transcript: ENSMUST00000184082
SMART Domains Protein: ENSMUSP00000139343
Gene: ENSMUSG00000025241

DomainStartEndE-ValueType
Pfam:RUN 7 167 4.5e-12 PFAM
low complexity region 196 206 N/A INTRINSIC
coiled coil region 223 270 N/A INTRINSIC
low complexity region 355 366 N/A INTRINSIC
Meta Mutation Damage Score 0.1686 question?
Coding Region Coverage
  • 1x: 100.0%
  • 3x: 99.9%
  • 10x: 99.6%
  • 20x: 98.8%
Validation Efficiency 100% (53/53)
MGI Phenotype FUNCTION: [Summary is not available for the mouse gene. This summary is for the human ortholog.] The protein encoded by this gene is a chemokine receptor belonging to the G protein-coupled receptor superfamily. The family members are characterized by the presence of 7 transmembrane domains and numerous conserved amino acids. This receptor is most closely related to RBS11 and the MIP1-alpha/RANTES receptor. It transduces a signal by increasing the intracellular calcium ions level. The viral macrophage inflammatory protein-II is an antagonist of this receptor and blocks signaling. Two alternatively spliced transcript variants encoding the same protein have been found for this gene. [provided by RefSeq, Jul 2008]
PHENOTYPE: Mice homozygous for a targeted null mutation exhibit reduced CD8+ dendritic cell migration in response to XCL1. [provided by MGI curators]
Allele List at MGI
Other mutations in this stock
Total: 53 list
GeneRefVarChr/LocMutationPredicted EffectZygosity
2610021A01Rik T C 7: 41,261,886 (GRCm39) V46A possibly damaging Het
Asb13 C A 13: 3,699,332 (GRCm39) N177K probably damaging Het
Asprv1 A G 6: 86,605,852 (GRCm39) T233A probably damaging Het
Atad2b T A 12: 5,077,182 (GRCm39) probably null Het
Atxn2 G T 5: 121,934,440 (GRCm39) V880F probably damaging Het
Car14 T C 3: 95,805,507 (GRCm39) N322S probably benign Het
Cdc42bpb T C 12: 111,343,587 (GRCm39) E40G probably damaging Het
Ceacam16 G T 7: 19,586,203 (GRCm39) A103E unknown Het
Cnnm2 A G 19: 46,866,339 (GRCm39) D829G probably damaging Het
Cpt1b C T 15: 89,305,570 (GRCm39) A382T probably damaging Het
Crygc A G 1: 65,112,484 (GRCm39) F30S probably damaging Het
Cstf2t A G 19: 31,060,992 (GRCm39) Q176R possibly damaging Het
Ctif A T 18: 75,770,213 (GRCm39) H57Q probably benign Het
Cyp2c40 A G 19: 39,792,289 (GRCm39) *195Q probably null Het
Cyp2j8 T A 4: 96,387,840 (GRCm39) D207V probably damaging Het
Ddx49 A G 8: 70,750,605 (GRCm39) V123A possibly damaging Het
E4f1 A T 17: 24,664,422 (GRCm39) I456K probably benign Het
Eif4b T C 15: 101,997,435 (GRCm39) S317P unknown Het
Enam A T 5: 88,652,016 (GRCm39) Q1175L possibly damaging Het
Eppk1 T C 15: 75,994,871 (GRCm39) Y670C probably benign Het
Fam163b G T 2: 27,002,752 (GRCm39) Q82K probably benign Het
Fam193a A T 5: 34,588,526 (GRCm39) K358N probably damaging Het
Gls C A 1: 52,235,939 (GRCm39) R392L probably damaging Het
Gramd1c A G 16: 43,810,232 (GRCm39) V247A probably damaging Het
Gucy1a1 C T 3: 82,016,014 (GRCm39) E325K possibly damaging Het
Hectd4 T C 5: 121,392,434 (GRCm39) C233R possibly damaging Het
Ice1 A G 13: 70,737,916 (GRCm39) V2177A possibly damaging Het
Kif28 A G 1: 179,536,989 (GRCm39) V498A possibly damaging Het
Klhdc7a T C 4: 139,693,250 (GRCm39) S566G possibly damaging Het
Mlph G A 1: 90,861,248 (GRCm39) probably null Het
Mndal T A 1: 173,684,961 (GRCm39) Y536F probably benign Het
Mrgpra2a A T 7: 47,076,411 (GRCm39) C282* probably null Het
Msantd5 G A 11: 51,125,613 (GRCm39) E179K possibly damaging Het
Msh3 A T 13: 92,410,536 (GRCm39) I684N probably damaging Het
Mylk G C 16: 34,699,894 (GRCm39) S419T probably benign Het
Nfxl1 T C 5: 72,680,879 (GRCm39) K747R probably benign Het
Nup98 T G 7: 101,773,404 (GRCm39) H1641P possibly damaging Het
Or8b35 A C 9: 37,903,856 (GRCm39) T18P probably damaging Het
Pcm1 A G 8: 41,728,736 (GRCm39) N570D probably damaging Het
Plekhh1 T A 12: 79,101,905 (GRCm39) V325E probably benign Het
Rabl3 A T 16: 37,384,120 (GRCm39) I176F probably damaging Het
Relb T C 7: 19,353,767 (GRCm39) E37G possibly damaging Het
Slc4a7 G A 14: 14,773,348 (GRCm38) E773K probably benign Het
Tars2 G A 3: 95,658,294 (GRCm39) T177I probably benign Het
Tenm2 T A 11: 35,997,563 (GRCm39) N842I probably damaging Het
Tmem175 A G 5: 108,792,432 (GRCm39) E236G possibly damaging Het
Trank1 A G 9: 111,220,753 (GRCm39) T2497A probably benign Het
Trf A G 9: 103,105,168 (GRCm39) V48A probably benign Het
Ttc28 A G 5: 111,331,258 (GRCm39) K493E possibly damaging Het
Unc50 T C 1: 37,470,402 (GRCm39) S9P probably benign Het
Uso1 T A 5: 92,341,861 (GRCm39) probably null Het
Usp49 A T 17: 47,985,753 (GRCm39) N487I possibly damaging Het
Xab2 T C 8: 3,660,638 (GRCm39) D768G probably benign Het
Other mutations in Xcr1
AlleleSourceChrCoordTypePredicted EffectPPH Score
IGL03324:Xcr1 APN 9 123,685,549 (GRCm39) missense probably benign 0.26
R0049:Xcr1 UTSW 9 123,684,940 (GRCm39) missense possibly damaging 0.49
R0049:Xcr1 UTSW 9 123,684,940 (GRCm39) missense possibly damaging 0.49
R0318:Xcr1 UTSW 9 123,685,219 (GRCm39) missense possibly damaging 0.92
R0683:Xcr1 UTSW 9 123,684,940 (GRCm39) missense probably benign 0.03
R4107:Xcr1 UTSW 9 123,685,153 (GRCm39) missense possibly damaging 0.67
R4127:Xcr1 UTSW 9 123,685,561 (GRCm39) missense probably damaging 1.00
R4859:Xcr1 UTSW 9 123,685,712 (GRCm39) missense probably benign
R5408:Xcr1 UTSW 9 123,685,631 (GRCm39) missense probably benign 0.00
R5419:Xcr1 UTSW 9 123,685,375 (GRCm39) missense probably benign 0.06
R5817:Xcr1 UTSW 9 123,684,922 (GRCm39) missense possibly damaging 0.94
R6051:Xcr1 UTSW 9 123,685,181 (GRCm39) missense probably benign 0.01
R6384:Xcr1 UTSW 9 123,684,847 (GRCm39) missense probably damaging 1.00
R6395:Xcr1 UTSW 9 123,684,854 (GRCm39) missense probably damaging 0.96
R6528:Xcr1 UTSW 9 123,685,048 (GRCm39) missense probably damaging 1.00
R6594:Xcr1 UTSW 9 123,685,309 (GRCm39) missense probably benign 0.00
R6990:Xcr1 UTSW 9 123,685,300 (GRCm39) missense probably benign 0.15
R9276:Xcr1 UTSW 9 123,685,680 (GRCm39) missense probably benign 0.01
Predicted Primers PCR Primer
(F):5'- TGCTGAGATCAACACAGGCAG -3'
(R):5'- ATAGTTCACTAGTGGAATCTGGC -3'

Sequencing Primer
(F):5'- CTGAGATCAACACAGGCAGTAGAC -3'
(R):5'- TGGCCCACAGACTTTACT -3'
Posted On 2019-10-24