Mutagenetix > Incidental Mutation

Incidental Mutation 'R0613:Ccl25'

54886

Institutional Source

Beutler Lab

Gene Symbol

Ccl25

Ensembl Gene

ENSMUSG00000023235

Gene Name

C-C motif chemokine ligand 25

Synonyms

Scya25, CKb15, TECK

MMRRC Submission

038802-MU

Accession Numbers

Essential gene?

Probably non essential (E-score: 0.053) question?

Stock #

R0613 (G1)

Quality Score

203

Status

Validated

Chromosome

Chromosomal Location

4375210-4410020 bp(+) (GRCm39)

Type of Mutation

missense

DNA Base Change (assembly)

T to C at 4399850 bp (GRCm39)

Zygosity

Heterozygous

Amino Acid Change

Valine to Alanine at position 94 (V94A)

Ref Sequence

ENSEMBL: ENSMUSP00000120719 (fasta)

Gene Model

predicted gene model for transcript(s): [ENSMUST00000024004] [ENSMUST00000069762] [ENSMUST00000098949] [ENSMUST00000110982] [ENSMUST00000127460] [ENSMUST00000136191] [ENSMUST00000155797]

AlphaFold

O35903

Predicted Effect

probably benign
Transcript: ENSMUST00000024004
AA Change: V10A

PolyPhen 2 Score 0.009 (Sensitivity: 0.96; Specificity: 0.77)

SMART Domains

Protein: ENSMUSP00000024004
Gene: ENSMUSG00000023235
AA Change: V10A

Domain	Start	End	E-Value	Type
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

probably benign
Transcript: ENSMUST00000110982
AA Change: V10A

PolyPhen 2 Score 0.009 (Sensitivity: 0.96; Specificity: 0.77)

SMART Domains

Protein: ENSMUSP00000106610
Gene: ENSMUSG00000023235
AA Change: V10A

Domain	Start	End	E-Value	Type
SCY	27	88	1.34e-5	SMART

Predicted Effect

probably benign
Transcript: ENSMUST00000127460
AA Change: V94A

PolyPhen 2 Score 0.422 (Sensitivity: 0.89; Specificity: 0.90)

SMART Domains

Protein: ENSMUSP00000120719
Gene: ENSMUSG00000023235
AA Change: V94A

Domain	Start	End	E-Value	Type
transmembrane domain	87	109	N/A	INTRINSIC
SCY	111	172	1.34e-5	SMART

Predicted Effect

probably benign
Transcript: ENSMUST00000136191
AA Change: V63A

PolyPhen 2 Score 0.075 (Sensitivity: 0.93; Specificity: 0.85)

SMART Domains

Protein: ENSMUSP00000117515
Gene: ENSMUSG00000023235
AA Change: V63A

Domain	Start	End	E-Value	Type
Pfam:IL8	23	66	2.3e-8	PFAM

Predicted Effect

probably benign
Transcript: ENSMUST00000155797

Meta Mutation Damage Score

0.4924

Coding Region Coverage

1x: 99.4%
3x: 98.9%
10x: 97.6%
20x: 95.3%

Validation Efficiency

100% (72/72)

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: 72 list
Gene	Ref	Var	Chr/Loc	Mutation	Predicted Effect	Zygosity
Acd	A	T	8: 106,427,200 (GRCm39)		probably null	Het
Adcy9	A	G	16: 4,237,403 (GRCm39)	S3P	probably damaging	Het
Adgrl4	T	C	3: 151,248,859 (GRCm39)		probably benign	Het
Aff3	T	C	1: 38,249,004 (GRCm39)	E700G	probably benign	Het
Ahctf1	A	G	1: 179,596,979 (GRCm39)	S56P	probably damaging	Het
Atp12a	T	A	14: 56,611,978 (GRCm39)	I384N	probably damaging	Het
Brca1	A	T	11: 101,399,036 (GRCm39)	S1519T	probably benign	Het
Cep170	T	C	1: 176,602,246 (GRCm39)	T287A	probably benign	Het
Ces1a	A	G	8: 93,752,209 (GRCm39)	S383P	probably benign	Het
Cntnap3	A	T	13: 64,906,228 (GRCm39)	F793I	probably damaging	Het
Ctsm	T	C	13: 61,687,496 (GRCm39)	R89G	probably damaging	Het
Cyp2j12	T	G	4: 95,990,316 (GRCm39)	T417P	probably damaging	Het
D430041D05Rik	G	C	2: 103,998,295 (GRCm39)	P1836R	probably damaging	Het
Edn2	T	A	4: 120,019,061 (GRCm39)		probably null	Het
Emc1	T	A	4: 139,102,383 (GRCm39)		probably benign	Het
Entrep1	T	A	19: 23,963,853 (GRCm39)	N239Y	probably damaging	Het
Fras1	T	C	5: 96,848,347 (GRCm39)		probably benign	Het
Fsip2	A	T	2: 82,824,139 (GRCm39)	D6624V	probably damaging	Het
Gpr107	A	G	2: 31,068,297 (GRCm39)	Y253C	probably damaging	Het
Gpr108	A	G	17: 57,545,174 (GRCm39)		probably benign	Het
Grik1	A	G	16: 87,848,221 (GRCm39)		probably null	Het
Gtf3c1	G	A	7: 125,243,306 (GRCm39)	P1766L	possibly damaging	Het
Gucy2c	A	T	6: 136,737,721 (GRCm39)	N293K	probably damaging	Het
Hps6	C	A	19: 45,992,260 (GRCm39)	P66T	probably benign	Het
Hspa9	A	T	18: 35,081,033 (GRCm39)	V216E	probably damaging	Het
Igsf8	T	A	1: 172,145,156 (GRCm39)	M224K	probably benign	Het
Igsf9b	T	C	9: 27,238,216 (GRCm39)	V569A	probably damaging	Het
Itgb4	A	T	11: 115,884,168 (GRCm39)	I952F	probably damaging	Het
Kcnh4	C	T	11: 100,637,758 (GRCm39)	G633E	probably benign	Het
Khdrbs2	A	G	1: 32,696,603 (GRCm39)	H344R	possibly damaging	Het
Kmo	C	A	1: 175,465,458 (GRCm39)	R71S	probably damaging	Het
Lrrc31	A	G	3: 30,739,184 (GRCm39)		probably benign	Het
Map1b	T	A	13: 99,578,149 (GRCm39)	D168V	probably damaging	Het
Mfsd6	T	C	1: 52,697,855 (GRCm39)		probably benign	Het
Mgst1	G	A	6: 138,133,243 (GRCm39)	G186D	probably damaging	Het
Mrc1	C	T	2: 14,299,630 (GRCm39)	A740V	probably damaging	Het
Mroh2a	G	A	1: 88,171,672 (GRCm39)	R770Q	probably damaging	Het
Mtor	T	C	4: 148,610,503 (GRCm39)	Y1605H	possibly damaging	Het
Ncoa4	T	A	14: 31,898,509 (GRCm39)	L443Q	probably damaging	Het
Nelfa	G	A	5: 34,060,807 (GRCm39)		probably benign	Het
Nepn	T	A	10: 52,277,353 (GRCm39)	L363Q	probably damaging	Het
Nfat5	A	G	8: 108,092,927 (GRCm39)	T630A	possibly damaging	Het
Nipal4	A	T	11: 46,041,211 (GRCm39)	V328E	probably benign	Het
Or11h4b	T	A	14: 50,918,861 (GRCm39)	I77F	probably benign	Het
Or2y1e	T	A	11: 49,218,575 (GRCm39)	S112R	possibly damaging	Het
Or4c122	A	T	2: 89,079,469 (GRCm39)	C178S	probably damaging	Het
Or4d2b	A	T	11: 87,780,053 (GRCm39)	V223E	possibly damaging	Het
Or6c76	T	A	10: 129,612,131 (GRCm39)	M116K	probably damaging	Het
Or8d2	T	A	9: 38,759,909 (GRCm39)	C166*	probably null	Het
Otogl	A	T	10: 107,652,931 (GRCm39)	N1140K	probably damaging	Het
Ppip5k2	A	C	1: 97,680,465 (GRCm39)	Y236*	probably null	Het
Prelid1	C	T	13: 55,472,156 (GRCm39)	R111*	probably null	Het
Prpf8	T	C	11: 75,394,270 (GRCm39)	L1771P	probably damaging	Het
Ptprb	A	T	10: 116,138,230 (GRCm39)	Y378F	possibly damaging	Het
Ptprb	A	G	10: 116,138,283 (GRCm39)	T396A	possibly damaging	Het
Rab3il1	T	C	19: 10,005,728 (GRCm39)	L174P	probably damaging	Het
Rab4a	T	C	8: 124,550,574 (GRCm39)	V18A	possibly damaging	Het
Scn3a	T	A	2: 65,302,628 (GRCm39)	M1273L	possibly damaging	Het
Sdhc	A	T	1: 170,957,413 (GRCm39)	V156E	probably benign	Het
Slco3a1	T	C	7: 73,996,382 (GRCm39)		probably benign	Het
Syne3	T	C	12: 104,924,371 (GRCm39)	T343A	probably benign	Het
Syt11	A	G	3: 88,669,776 (GRCm39)	C39R	probably damaging	Het
Tll2	G	T	19: 41,093,429 (GRCm39)	D462E	probably damaging	Het
Tmem132e	T	A	11: 82,329,164 (GRCm39)	V481D	probably damaging	Het
Tmem161b	C	T	13: 84,399,439 (GRCm39)	L17F	probably damaging	Het
Vmn2r105	T	A	17: 20,428,578 (GRCm39)	I833F	probably damaging	Het
Vstm2a	A	T	11: 16,213,140 (GRCm39)	N175I	probably damaging	Het
Xpnpep1	G	T	19: 52,994,784 (GRCm39)	D238E	probably damaging	Het
Zfp112	G	A	7: 23,826,453 (GRCm39)	G807D	probably benign	Het
Zfp518b	A	T	5: 38,830,946 (GRCm39)	V353E	probably damaging	Het
Zfp69	T	C	4: 120,791,544 (GRCm39)	E39G	probably benign	Het
Zfp865	A	G	7: 5,032,090 (GRCm39)	H25R	possibly damaging	Het

Other mutations in Ccl25

Allele	Source	Chr	Coord	Type	Predicted Effect	PPH 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
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
R4279:Ccl25	UTSW	8	4,399,829 (GRCm39)	missense	probably damaging	1.00
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'- AGCAAGTCCTTTGCCATCTGCC -3'
(R):5'- TGGGGACACTTCATCTCTACCCATC -3'

Sequencing Primer
(F):5'- GCCATCTGCCTCTCTTTCAG -3'
(R):5'- TCTACCTCCAGTAGTACCAGG -3'

Posted On

2013-07-11