Incidental Mutation 'R9273:Ccr9'
ID 703102
Institutional Source Beutler Lab
Gene Symbol Ccr9
Ensembl Gene ENSMUSG00000029530
Gene Name C-C motif chemokine receptor 9
Synonyms GPR-9-6, Cmkbr10
MMRRC Submission
Accession Numbers
Essential gene? Probably non essential (E-score: 0.094) question?
Stock # R9273 (G1)
Quality Score 225.009
Status Validated
Chromosome 9
Chromosomal Location 123596276-123612522 bp(+) (GRCm39)
Type of Mutation missense
DNA Base Change (assembly) A to G at 123609085 bp (GRCm39)
Zygosity Heterozygous
Amino Acid Change Threonine to Alanine at position 256 (T256A)
Ref Sequence ENSEMBL: ENSMUSP00000131782 (fasta)
Gene Model predicted gene model for transcript(s): [ENSMUST00000111454] [ENSMUST00000163559] [ENSMUST00000166236] [ENSMUST00000168910] [ENSMUST00000180093]
AlphaFold Q9WUT7
Predicted Effect probably benign
Transcript: ENSMUST00000111454
AA Change: T244A

PolyPhen 2 Score 0.072 (Sensitivity: 0.94; Specificity: 0.84)
SMART Domains Protein: ENSMUSP00000107081
Gene: ENSMUSG00000029530
AA Change: T244A

DomainStartEndE-ValueType
Pfam:7TM_GPCR_Srsx 47 320 1.2e-5 PFAM
Pfam:7tm_1 53 305 1.1e-51 PFAM
Predicted Effect probably benign
Transcript: ENSMUST00000163559
AA Change: T256A

PolyPhen 2 Score 0.072 (Sensitivity: 0.94; Specificity: 0.84)
SMART Domains Protein: ENSMUSP00000131782
Gene: ENSMUSG00000029530
AA Change: T256A

DomainStartEndE-ValueType
Pfam:7TM_GPCR_Srsx 59 332 5.9e-6 PFAM
Pfam:7tm_1 65 317 3.4e-52 PFAM
Predicted Effect probably benign
Transcript: ENSMUST00000166236
AA Change: T256A

PolyPhen 2 Score 0.072 (Sensitivity: 0.94; Specificity: 0.84)
SMART Domains Protein: ENSMUSP00000127024
Gene: ENSMUSG00000029530
AA Change: T256A

DomainStartEndE-ValueType
Pfam:7TM_GPCR_Srsx 59 332 5.9e-6 PFAM
Pfam:7tm_1 65 317 4.6e-47 PFAM
Predicted Effect probably benign
Transcript: ENSMUST00000168910
AA Change: T256A

PolyPhen 2 Score 0.072 (Sensitivity: 0.94; Specificity: 0.84)
SMART Domains Protein: ENSMUSP00000126758
Gene: ENSMUSG00000029530
AA Change: T256A

DomainStartEndE-ValueType
Pfam:7TM_GPCR_Srsx 59 332 5.9e-6 PFAM
Pfam:7tm_1 65 317 3.4e-52 PFAM
Predicted Effect probably benign
Transcript: ENSMUST00000180093
AA Change: T256A

PolyPhen 2 Score 0.072 (Sensitivity: 0.94; Specificity: 0.84)
SMART Domains Protein: ENSMUSP00000137144
Gene: ENSMUSG00000029530
AA Change: T256A

DomainStartEndE-ValueType
Pfam:7TM_GPCR_Srsx 59 332 5.9e-6 PFAM
Pfam:7tm_1 65 317 3.4e-52 PFAM
Coding Region Coverage
  • 1x: 100.0%
  • 3x: 99.9%
  • 10x: 99.6%
  • 20x: 98.7%
Validation Efficiency 100% (70/70)
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 member of the beta chemokine receptor family. It is predicted to be a seven transmembrane protein similar to G protein-coupled receptors. Chemokines and their receptors are key regulators of the thymocytes migration and maturation in normal and inflammation conditions. The specific ligand of this receptor is CCL25. It has been found that this gene is differentially expressed by T lymphocytes of small intestine and colon, suggested a role in the thymocytes recruitment and development that may permit functional specialization of immune responses in different segment of the gastrointestinal tract. This gene is mapped to the chemokine receptor gene cluster region. Two alternatively spliced transcript variants have been described. Multiple transcript variants encoding different isoforms have been found for this gene. [provided by RefSeq, Jan 2012]
PHENOTYPE: Homozygous null mice have altered trafficing of lymphocytes to the intestine. [provided by MGI curators]
Allele List at MGI
Other mutations in this stock
Total: 70 list
GeneRefVarChr/LocMutationPredicted EffectZygosity
Abcd2 T C 15: 91,033,232 (GRCm39) D728G probably benign Het
Adig A T 2: 158,347,727 (GRCm39) D48V probably damaging Het
Adig A C 2: 158,349,890 (GRCm39) *57S probably null Het
Amigo3 A G 9: 107,932,020 (GRCm39) D481G probably damaging Het
Atf6b T A 17: 34,872,968 (GRCm39) M628K probably damaging Het
Atoh8 A G 6: 72,212,129 (GRCm39) L7P probably damaging Het
Bcl9 A G 3: 97,115,959 (GRCm39) S912P probably damaging Het
Card9 T A 2: 26,247,310 (GRCm39) I280F probably damaging Het
Cd300lg T C 11: 101,939,590 (GRCm39) I306T probably damaging Het
Cfap65 T A 1: 74,960,769 (GRCm39) M734L probably benign Het
Cobll1 A G 2: 64,929,356 (GRCm39) S657P probably damaging Het
Comp A G 8: 70,831,285 (GRCm39) N384S probably damaging Het
Cps1 T A 1: 67,191,445 (GRCm39) V209D possibly damaging Het
Cwc22 A T 2: 77,759,803 (GRCm39) D81E possibly damaging Het
D630045J12Rik G A 6: 38,167,512 (GRCm39) P1030L possibly damaging Het
Dcn A G 10: 97,343,637 (GRCm39) Y199C probably damaging Het
Exosc3 A T 4: 45,316,969 (GRCm39) I228N probably damaging Het
Fbxo10 T C 4: 45,062,178 (GRCm39) H116R probably benign Het
Fbxo21 T A 5: 118,146,108 (GRCm39) I577N probably damaging Het
Flnc A T 6: 29,447,815 (GRCm39) Q1206L probably benign Het
Fubp3 T C 2: 31,503,056 (GRCm39) F480L probably benign Het
Fzd5 T C 1: 64,775,110 (GRCm39) N217S possibly damaging Het
Garem1 G A 18: 21,281,274 (GRCm39) R361C probably damaging Het
Gcg T C 2: 62,306,133 (GRCm39) M155V probably null Het
Gm7298 G A 6: 121,756,604 (GRCm39) probably benign Het
Gpr160 T A 3: 30,950,038 (GRCm39) L37I probably benign Het
Grik1 G A 16: 87,848,379 (GRCm39) H130Y Het
Hydin T A 8: 111,233,580 (GRCm39) I1806N probably damaging Het
Isl1 A T 13: 116,444,902 (GRCm39) C42* probably null Het
Itpr2 T C 6: 146,226,529 (GRCm39) D1405G probably damaging Het
Kat6b A G 14: 21,711,551 (GRCm39) N682D probably benign Het
Kcnh6 C G 11: 105,924,860 (GRCm39) H941Q possibly damaging Het
Kprp A C 3: 92,733,000 (GRCm39) C17G probably damaging Het
Lsm14a T C 7: 34,088,225 (GRCm39) probably benign Het
Mrgpra2a G T 7: 47,076,307 (GRCm39) T317K probably benign Het
Myh11 A G 16: 14,054,283 (GRCm39) V360A Het
Nicn1 C T 9: 108,171,708 (GRCm39) R163C possibly damaging Het
Oaf G A 9: 43,133,966 (GRCm39) P252S probably benign Het
Obox2 T G 7: 15,131,290 (GRCm39) V132G unknown Het
Or51v8 T A 7: 103,319,633 (GRCm39) T202S probably benign Het
Or52b1 A G 7: 104,978,646 (GRCm39) L251P probably damaging Het
Or5b109 C T 19: 13,212,268 (GRCm39) S218L probably damaging Het
Or5b12 T C 19: 12,897,446 (GRCm39) T76A possibly damaging Het
Pld2 T A 11: 70,448,234 (GRCm39) S894T probably benign Het
Plxna1 G T 6: 89,296,364 (GRCm39) S1893R possibly damaging Het
Prkd1 T C 12: 50,472,232 (GRCm39) E227G possibly damaging Het
Prox1 T C 1: 189,893,242 (GRCm39) N401S possibly damaging Het
Prune2 T C 19: 17,095,690 (GRCm39) V398A possibly damaging Het
Rasgef1a A G 6: 118,063,223 (GRCm39) N285D probably benign Het
Rbbp5 A G 1: 132,420,304 (GRCm39) K179R probably benign Het
Rp9 G A 9: 22,379,573 (GRCm39) probably benign Het
Slc15a2 A G 16: 36,574,090 (GRCm39) F588L probably benign Het
Sptan1 T A 2: 29,880,977 (GRCm39) D415E possibly damaging Het
Syne1 T C 10: 4,990,901 (GRCm39) K593E probably benign Het
Tab1 A G 15: 80,041,904 (GRCm39) T341A probably benign Het
Tmc4 T C 7: 3,670,552 (GRCm39) E513G probably damaging Het
Tmem131l A C 3: 83,848,244 (GRCm39) V302G probably damaging Het
Tnip1 G A 11: 54,807,783 (GRCm39) H553Y possibly damaging Het
Tns2 C T 15: 102,021,478 (GRCm39) P1048S probably damaging Het
Twsg1 C T 17: 66,233,306 (GRCm39) V215I probably damaging Het
Txnl1 G A 18: 63,825,325 (GRCm39) probably benign Het
Unc13c A G 9: 73,839,862 (GRCm39) Y330H possibly damaging Het
Utrn A T 10: 12,509,707 (GRCm39) W2422R probably damaging Het
Vmn2r112 T A 17: 22,837,721 (GRCm39) D727E probably damaging Het
Vmn2r59 G T 7: 41,695,286 (GRCm39) C375* probably null Het
Vopp1 G T 6: 57,731,575 (GRCm39) Q139K possibly damaging Het
Vwa5b1 T C 4: 138,316,005 (GRCm39) D579G probably damaging Het
Wdr6 A G 9: 108,450,691 (GRCm39) Y971H probably benign Het
Zfp354c A G 11: 50,706,059 (GRCm39) F339L probably damaging Het
Zfyve26 A G 12: 79,317,610 (GRCm39) probably null Het
Other mutations in Ccr9
AlleleSourceChrCoordTypePredicted EffectPPH Score
IGL00402:Ccr9 APN 9 123,609,109 (GRCm39) missense probably benign 0.00
IGL00983:Ccr9 APN 9 123,608,351 (GRCm39) missense probably benign
IGL02466:Ccr9 APN 9 123,608,911 (GRCm39) missense probably damaging 1.00
IGL03151:Ccr9 APN 9 123,603,638 (GRCm39) utr 5 prime probably benign
IGL03302:Ccr9 APN 9 123,608,601 (GRCm39) missense probably damaging 1.00
hamlet UTSW 9 123,608,504 (GRCm39) missense probably damaging 1.00
Laertes UTSW 9 123,608,911 (GRCm39) missense probably damaging 1.00
Ophelia UTSW 9 123,608,534 (GRCm39) missense probably damaging 1.00
R0310:Ccr9 UTSW 9 123,603,617 (GRCm39) utr 5 prime probably benign
R0393:Ccr9 UTSW 9 123,609,035 (GRCm39) missense probably benign 0.18
R0421:Ccr9 UTSW 9 123,608,671 (GRCm39) missense probably benign
R2069:Ccr9 UTSW 9 123,608,429 (GRCm39) missense probably benign 0.05
R3980:Ccr9 UTSW 9 123,608,441 (GRCm39) missense probably benign 0.14
R4645:Ccr9 UTSW 9 123,608,658 (GRCm39) missense probably benign 0.00
R4672:Ccr9 UTSW 9 123,608,752 (GRCm39) missense probably damaging 0.96
R4920:Ccr9 UTSW 9 123,608,504 (GRCm39) missense probably damaging 1.00
R5661:Ccr9 UTSW 9 123,609,164 (GRCm39) missense probably benign 0.04
R5964:Ccr9 UTSW 9 123,608,499 (GRCm39) missense probably benign 0.12
R7037:Ccr9 UTSW 9 123,609,036 (GRCm39) missense possibly damaging 0.52
R7500:Ccr9 UTSW 9 123,608,534 (GRCm39) missense probably damaging 1.00
R7620:Ccr9 UTSW 9 123,608,911 (GRCm39) missense probably damaging 1.00
R7670:Ccr9 UTSW 9 123,608,371 (GRCm39) missense probably damaging 0.98
R7762:Ccr9 UTSW 9 123,609,022 (GRCm39) missense probably benign 0.08
R8154:Ccr9 UTSW 9 123,608,896 (GRCm39) missense probably benign 0.00
R8283:Ccr9 UTSW 9 123,608,696 (GRCm39) missense probably damaging 1.00
R8525:Ccr9 UTSW 9 123,608,732 (GRCm39) missense probably benign 0.31
R9046:Ccr9 UTSW 9 123,608,831 (GRCm39) missense probably benign
R9462:Ccr9 UTSW 9 123,608,600 (GRCm39) missense probably damaging 1.00
X0026:Ccr9 UTSW 9 123,608,566 (GRCm39) missense probably damaging 1.00
Predicted Primers PCR Primer
(F):5'- GCCACATGTACCATGGTCTAC -3'
(R):5'- ACCAGATCCCTTCGGAATCTC -3'

Sequencing Primer
(F):5'- ATGTACCATGGTCTACCCTAAGG -3'
(R):5'- AGAACTGGGTTCAGACAACTGTG -3'
Posted On 2022-03-25