Incidental Mutation 'R4279:Ccl25'
ID 322803
Institutional Source Beutler Lab
Gene Symbol Ccl25
Ensembl Gene ENSMUSG00000023235
Gene Name C-C motif chemokine ligand 25
Synonyms Scya25, CKb15, TECK
MMRRC Submission 041079-MU
Accession Numbers
Essential gene? Probably non essential (E-score: 0.053) question?
Stock # R4279 (G1)
Quality Score 225
Status Validated
Chromosome 8
Chromosomal Location 4375210-4410020 bp(+) (GRCm39)
Type of Mutation missense
DNA Base Change (assembly) T to A at 4399829 bp (GRCm39)
Zygosity Heterozygous
Amino Acid Change Leucine to Glutamine at position 56 (L56Q)
Ref Sequence ENSEMBL: ENSMUSP00000117515 (fasta)
Gene Model predicted gene model for transcript(s): [ENSMUST00000024004] [ENSMUST00000069762] [ENSMUST00000098949] [ENSMUST00000110982] [ENSMUST00000127460] [ENSMUST00000136191] [ENSMUST00000155797]
AlphaFold O35903
Predicted Effect probably damaging
Transcript: ENSMUST00000024004
AA Change: L3Q

PolyPhen 2 Score 0.994 (Sensitivity: 0.69; Specificity: 0.97)
SMART Domains Protein: ENSMUSP00000024004
Gene: ENSMUSG00000023235
AA Change: L3Q

DomainStartEndE-ValueType
signal peptide 1 23 N/A INTRINSIC
SCY 27 88 1.34e-5 SMART
Predicted Effect probably benign
Transcript: ENSMUST00000069762
Predicted Effect probably benign
Transcript: ENSMUST00000098949
Predicted Effect possibly damaging
Transcript: ENSMUST00000110982
AA Change: L3Q

PolyPhen 2 Score 0.946 (Sensitivity: 0.80; Specificity: 0.95)
SMART Domains Protein: ENSMUSP00000106610
Gene: ENSMUSG00000023235
AA Change: L3Q

DomainStartEndE-ValueType
SCY 27 88 1.34e-5 SMART
Predicted Effect probably damaging
Transcript: ENSMUST00000127460
AA Change: L87Q

PolyPhen 2 Score 0.997 (Sensitivity: 0.41; Specificity: 0.98)
SMART Domains Protein: ENSMUSP00000120719
Gene: ENSMUSG00000023235
AA Change: L87Q

DomainStartEndE-ValueType
transmembrane domain 87 109 N/A INTRINSIC
SCY 111 172 1.34e-5 SMART
Predicted Effect probably damaging
Transcript: ENSMUST00000136191
AA Change: L56Q

PolyPhen 2 Score 0.997 (Sensitivity: 0.41; Specificity: 0.98)
SMART Domains Protein: ENSMUSP00000117515
Gene: ENSMUSG00000023235
AA Change: L56Q

DomainStartEndE-ValueType
Pfam:IL8 23 66 2.3e-8 PFAM
Predicted Effect probably benign
Transcript: ENSMUST00000155797
Meta Mutation Damage Score 0.6655 question?
Coding Region Coverage
  • 1x: 99.3%
  • 3x: 98.8%
  • 10x: 97.6%
  • 20x: 96.0%
Validation Efficiency 98% (40/41)
MGI Phenotype FUNCTION: [Summary is not available for the mouse gene. This summary is for the human ortholog.] This antimicrobial gene belongs to the subfamily of small cytokine CC genes. Cytokines are a family of secreted proteins involved in immunoregulatory and inflammatory processes. The CC cytokines are proteins characterized by two adjacent cysteines. The cytokine encoded by this gene displays chemotactic activity for dendritic cells, thymocytes, and activated macrophages but is inactive on peripheral blood lymphocytes and neutrophils. The product of this gene binds to chemokine receptor CCR9. Alternative splicing results in multiple transcript variants. [provided by RefSeq, Sep 2014]
PHENOTYPE: Mice homozygous for a knock-out allele exhibit impaired accumulation of antigen-specific CD8+ T lymphocytes within both lamina propria and epithelium of the small intestine. [provided by MGI curators]
Allele List at MGI
Other mutations in this stock
Total: 37 list
GeneRefVarChr/LocMutationPredicted EffectZygosity
Arid2 T A 15: 96,269,637 (GRCm39) L1250Q probably damaging Het
Ccdc73 A T 2: 104,815,355 (GRCm39) N364Y possibly damaging Het
Ctnnd2 C A 15: 30,905,966 (GRCm39) A871E probably damaging Het
Cyp2b23 C T 7: 26,365,452 (GRCm39) S461N possibly damaging Het
Dgat2 C A 7: 98,813,912 (GRCm39) G120V probably damaging Het
Dsp A T 13: 38,369,207 (GRCm39) I768F probably damaging Het
Dzank1 T C 2: 144,333,765 (GRCm39) E356G probably benign Het
Fam120a A T 13: 49,042,734 (GRCm39) V889D probably benign Het
Fxyd5 C A 7: 30,734,811 (GRCm39) D139Y probably null Het
Gcnt2 T C 13: 41,041,666 (GRCm39) V275A probably benign Het
Gimap4 A G 6: 48,667,511 (GRCm39) I89V probably benign Het
Gm6578 G A 6: 12,100,187 (GRCm39) noncoding transcript Het
Jmjd8 A G 17: 26,048,787 (GRCm39) probably benign Het
Jmy G C 13: 93,635,390 (GRCm39) P142R probably damaging Het
Jmy C A 13: 93,635,781 (GRCm39) D12Y probably damaging Het
Kif13b G T 14: 65,016,805 (GRCm39) A1324S probably damaging Het
Klhl31 T C 9: 77,563,121 (GRCm39) S629P unknown Het
Lpar1 A G 4: 58,487,115 (GRCm39) V52A possibly damaging Het
Lrp5 A G 19: 3,641,778 (GRCm39) S1395P possibly damaging Het
Mogs T C 6: 83,093,048 (GRCm39) L132P probably damaging Het
Ncam1 C A 9: 49,418,259 (GRCm39) probably benign Het
Ndufs8 A T 19: 3,961,014 (GRCm39) F88I probably damaging Het
Nos2 T A 11: 78,820,602 (GRCm39) L69Q probably benign Het
Or51a6 T A 7: 102,604,292 (GRCm39) Q179L probably benign Het
Pls3 A T X: 74,846,138 (GRCm39) I192N probably benign Het
Psmd6 T C 14: 14,112,297 (GRCm38) N388S possibly damaging Het
Rrbp1 T C 2: 143,805,028 (GRCm39) T1046A probably benign Het
Scn11a T C 9: 119,583,428 (GRCm39) E1729G probably benign Het
Slc6a3 A G 13: 73,692,953 (GRCm39) D191G possibly damaging Het
Slc9a1 T C 4: 133,139,400 (GRCm39) F206S probably benign Het
Tmc5 A G 7: 118,273,886 (GRCm39) *968W probably null Het
Ttn T A 2: 76,585,168 (GRCm39) I22042F probably damaging Het
Unc13a T C 8: 72,119,311 (GRCm39) K9R probably damaging Het
Vegfa A G 17: 46,342,392 (GRCm39) V142A probably benign Het
Vmn1r119 T A 7: 20,745,786 (GRCm39) M199L probably benign Het
Vnn1 A T 10: 23,774,410 (GRCm39) D151V possibly damaging Het
Zfp365 A T 10: 67,733,431 (GRCm39) F254I probably benign Het
Other mutations in Ccl25
AlleleSourceChrCoordTypePredicted EffectPPH Score
IGL02070:Ccl25 APN 8 4,398,700 (GRCm39) intron probably benign
IGL02188:Ccl25 APN 8 4,398,552 (GRCm39) intron probably benign
IGL03338:Ccl25 APN 8 4,399,898 (GRCm39) intron probably benign
R0584:Ccl25 UTSW 8 4,404,085 (GRCm39) splice site probably benign
R0613:Ccl25 UTSW 8 4,399,850 (GRCm39) missense probably benign 0.42
R1208:Ccl25 UTSW 8 4,407,631 (GRCm39) missense possibly damaging 0.92
R1208:Ccl25 UTSW 8 4,407,631 (GRCm39) missense possibly damaging 0.92
R1413:Ccl25 UTSW 8 4,403,892 (GRCm39) makesense probably null
R3844:Ccl25 UTSW 8 4,404,183 (GRCm39) missense possibly damaging 0.86
R4921:Ccl25 UTSW 8 4,403,913 (GRCm39) missense possibly damaging 0.92
R7021:Ccl25 UTSW 8 4,399,641 (GRCm39) intron probably benign
R7033:Ccl25 UTSW 8 4,399,641 (GRCm39) intron probably benign
R7630:Ccl25 UTSW 8 4,403,955 (GRCm39) missense probably damaging 1.00
R8317:Ccl25 UTSW 8 4,404,138 (GRCm39) missense probably benign 0.00
R8550:Ccl25 UTSW 8 4,377,890 (GRCm39) missense possibly damaging 0.72
R9799:Ccl25 UTSW 8 4,377,799 (GRCm39) missense unknown
Predicted Primers PCR Primer
(F):5'- TCAGGACCAGAAAGGCATTG -3'
(R):5'- GTTATGCCCAACCTCCCAAGAG -3'

Sequencing Primer
(F):5'- CAGAAAGGCATTGGTGAGTCTTTTTC -3'
(R):5'- TCCCAAGAGACACTGAAGAGTTC -3'
Posted On 2015-06-20