Mutagenetix > Incidental Mutation

Incidental Mutation 'R0646:Itgad'

57162

Institutional Source

Beutler Lab

Gene Symbol

Itgad

Ensembl Gene

ENSMUSG00000070369

Gene Name

integrin, alpha D

Synonyms

Cd11d

MMRRC Submission

038831-MU

Accession Numbers

Essential gene?

Probably non essential (E-score: 0.054) question?

Stock #

R0646 (G1)

Quality Score

136

Status

Validated

Chromosome

Chromosomal Location

128154376-128223816 bp(+) (GRCm38)

Type of Mutation

missense

DNA Base Change (assembly)

T to A at 128174004 bp (GRCm38)

Zygosity

Heterozygous

Amino Acid Change

Valine to Glutamic Acid at position 11 (V11E)

Ref Sequence

ENSEMBL: ENSMUSP00000135572 (fasta)

Gene Model

predicted gene model for transcript(s): [ENSMUST00000033051] [ENSMUST00000106237] [ENSMUST00000177111]

AlphaFold

Q3V0T4

Predicted Effect

probably benign
Transcript: ENSMUST00000033051
AA Change: V11E

PolyPhen 2 Score 0.094 (Sensitivity: 0.93; Specificity: 0.85)

SMART Domains

Protein: ENSMUSP00000033051
Gene: ENSMUSG00000070369
AA Change: V11E

Domain	Start	End	E-Value	Type
signal peptide	1	24	N/A	INTRINSIC
Int_alpha	38	88	1.35e1	SMART
VWA	155	376	1.24e-36	SMART
Blast:VWA	405	436	1e-9	BLAST
Int_alpha	443	492	3.67e-3	SMART
Int_alpha	496	553	1.03e-6	SMART
Int_alpha	559	615	1.73e-13	SMART
Int_alpha	622	676	1.69e-2	SMART
transmembrane domain	1142	1164	N/A	INTRINSIC
Pfam:Integrin_alpha	1165	1179	1.3e-7	PFAM

Predicted Effect

probably benign
Transcript: ENSMUST00000106237

SMART Domains

Protein: ENSMUSP00000101844
Gene: ENSMUSG00000070369

Domain	Start	End	E-Value	Type
Int_alpha	40	90	1.35e1	SMART
VWA	157	342	1.31e-44	SMART
Blast:VWA	371	402	9e-10	BLAST
Int_alpha	409	458	3.67e-3	SMART
Int_alpha	462	519	1.03e-6	SMART
Int_alpha	525	581	1.73e-13	SMART
Int_alpha	588	642	1.69e-2	SMART
transmembrane domain	1108	1130	N/A	INTRINSIC
Pfam:Integrin_alpha	1131	1145	4.3e-7	PFAM

Predicted Effect

possibly damaging
Transcript: ENSMUST00000177111
AA Change: V11E

PolyPhen 2 Score 0.887 (Sensitivity: 0.82; Specificity: 0.94)

SMART Domains

Protein: ENSMUSP00000135572
Gene: ENSMUSG00000070369
AA Change: V11E

Domain	Start	End	E-Value	Type
signal peptide	1	24	N/A	INTRINSIC
Int_alpha	38	88	1.35e1	SMART
VWA	155	340	1.31e-44	SMART
Blast:VWA	369	400	9e-10	BLAST
Int_alpha	407	456	3.67e-3	SMART
Int_alpha	460	517	1.03e-6	SMART
Int_alpha	523	579	1.73e-13	SMART
Int_alpha	586	640	1.69e-2	SMART
transmembrane domain	1106	1128	N/A	INTRINSIC
Pfam:Integrin_alpha	1129	1143	5.4e-7	PFAM

Meta Mutation Damage Score

0.5099

Coding Region Coverage

1x: 99.2%
3x: 98.7%
10x: 97.4%
20x: 95.7%

Validation Efficiency

95% (123/130)

MGI Phenotype

FUNCTION: [Summary is not available for the mouse gene. This summary is for the human ortholog.] This gene belongs to the beta-2 integrin family of membrane glycoproteins, which are are composed of non-covalently linked alpha and beta subunits to form a heterodimer. It encodes the alpha subunit of the cell surface heterodimers and is involved in the activation and adhesion functions of leukocytes. The gene is located about 11kb downstream of the integrin subunit alpha X gene, another member of the integrin family. It is expressed in the tissue and circulating myeloid leukocytes. Alternative splicing results in multiple transcript variants. [provided by RefSeq, Dec 2015]
PHENOTYPE: Homozygous null mice exhibit a reduced staphylococcal enterotoxin-induced T cell response. [provided by MGI curators]

Allele List at MGI

Other mutations in this stock

Total: 125 list
Gene	Ref	Var	Chr/Loc	Mutation	Predicted Effect	Zygosity
0610010F05Rik	C	T	11: 23,575,491	R716H	probably damaging	Het
4930432E11Rik	C	T	7: 29,561,285		noncoding transcript	Het
A430078G23Rik	T	C	8: 3,386,959	Y250H	probably damaging	Het
Abcb11	A	G	2: 69,285,283	I579T	probably damaging	Het
Abcc9	T	C	6: 142,682,104	N400S	probably benign	Het
Adarb2	T	C	13: 8,731,819	L577P	probably damaging	Het
Agt	A	C	8: 124,557,113	N422K	probably damaging	Het
Ahnak	A	T	19: 9,013,402	K4017*	probably null	Het
Akap13	C	A	7: 75,747,746	Q2575K	probably damaging	Het
Aldh3a2	A	T	11: 61,253,715	I339K	probably damaging	Het
Alox15	G	T	11: 70,345,624	Y483*	probably null	Het
Ampd1	A	T	3: 103,099,597	I713F	probably damaging	Het
Amph	A	T	13: 19,113,116	E344V	possibly damaging	Het
Arid5b	A	G	10: 68,096,977	S1032P	probably damaging	Het
Armc8	C	A	9: 99,505,688	L393F	probably damaging	Het
Bpnt1	A	G	1: 185,345,426		probably null	Het
Cachd1	G	A	4: 100,988,221	R970H	probably damaging	Het
Cd207	T	C	6: 83,675,756	T131A	probably benign	Het
Cd83	G	A	13: 43,797,533	V54I	probably benign	Het
Cfap43	T	C	19: 47,763,676	K1086E	probably benign	Het
Cfap65	A	T	1: 74,902,169	V1837E	probably benign	Het
Clcnka	T	A	4: 141,396,606	H89L	probably benign	Het
Cnga4	T	C	7: 105,404,975	I50T	possibly damaging	Het
Cog5	A	G	12: 31,837,359		probably benign	Het
Col11a2	T	A	17: 34,059,348		probably null	Het
Col28a1	T	G	6: 8,175,291	I186L	possibly damaging	Het
Col4a2	T	A	8: 11,431,252	M808K	probably benign	Het
Copb2	A	G	9: 98,563,475		probably benign	Het
Dbnl	G	A	11: 5,795,441		probably benign	Het
Dbx2	T	C	15: 95,654,612	T51A	possibly damaging	Het
Dcp1a	A	T	14: 30,502,885	M123L	probably damaging	Het
Ddx42	T	A	11: 106,232,833	F217I	probably benign	Het
Dlc1	T	C	8: 36,858,051	T367A	probably benign	Het
Dmgdh	A	T	13: 93,752,355	T834S	probably benign	Het
Dnah8	T	C	17: 30,684,173	S929P	probably damaging	Het
Dnase1l2	C	A	17: 24,441,082	V271L	possibly damaging	Het
Dsc1	T	C	18: 20,096,057	Y392C	probably damaging	Het
Edn1	T	C	13: 42,305,242		probably benign	Het
Eps8l3	T	C	3: 107,884,810	L351P	probably damaging	Het
F12	G	A	13: 55,422,483		probably benign	Het
Fam47e	T	C	5: 92,578,458		probably benign	Het
Fcrl5	C	A	3: 87,442,013	Q32K	probably benign	Het
Fndc1	C	T	17: 7,741,673	V1637I	possibly damaging	Het
Foxg1	G	T	12: 49,384,567		probably benign	Het
Frrs1	A	T	3: 116,902,421	I530F	possibly damaging	Het
Galnt5	A	T	2: 57,999,085	K232N	probably benign	Het
Ggt5	G	A	10: 75,602,648	V68M	probably damaging	Het
Gm11639	G	A	11: 104,720,501	D390N	probably benign	Het
Gm13084	A	C	4: 143,812,585	S113A	possibly damaging	Het
Gm16519	T	C	17: 70,929,106	C17R	probably benign	Het
Gm17535	A	G	9: 3,035,804	Y224C	probably null	Het
Gm884	T	A	11: 103,613,160	K485*	probably null	Het
Gm9631	T	G	11: 121,945,629	D28A	probably damaging	Het
Gpx2	T	C	12: 76,795,313	I21M	probably benign	Het
H2-Q2	T	G	17: 35,345,685	D354E	probably damaging	Het
Icam2	A	T	11: 106,380,891	I71K	probably damaging	Het
Il12a	T	C	3: 68,697,890		probably benign	Het
Insm2	C	G	12: 55,600,440	A323G	probably benign	Het
Itga1	T	C	13: 114,968,299	T1064A	probably benign	Het
Kctd15	C	T	7: 34,644,881	S115N	probably damaging	Het
Klra5	A	G	6: 129,903,564	W124R	probably damaging	Het
Kng2	T	A	16: 22,987,736	D571V	probably benign	Het
Kpna6	A	T	4: 129,650,790	F380I	probably benign	Het
Lipo1	A	T	19: 33,784,769	Y109*	probably null	Het
Man2a2	T	C	7: 80,363,197	H540R	possibly damaging	Het
Map2k4	T	C	11: 65,712,275	E188G	probably damaging	Het
Mast4	T	C	13: 102,758,744		probably benign	Het
Mbtd1	A	G	11: 93,905,212	D25G	probably damaging	Het
Med13	T	A	11: 86,331,089	Q238L	possibly damaging	Het
Mmachc	A	G	4: 116,703,654	Y215H	probably damaging	Het
Mtor	T	A	4: 148,484,354	Y1110*	probably null	Het
Nek2	A	G	1: 191,822,219	N57D	probably damaging	Het
Nek7	ACCCC	ACCC	1: 138,515,693		probably null	Het
Neo1	G	T	9: 58,931,034	T489K	probably damaging	Het
Neu1	T	A	17: 34,934,760	Y387N	probably damaging	Het
Nfasc	A	T	1: 132,608,438	C586*	probably null	Het
Nle1	G	A	11: 82,904,845	L259F	probably damaging	Het
Nrde2	G	A	12: 100,143,846	Q309*	probably null	Het
Nufip2	C	T	11: 77,686,453	H76Y	probably benign	Het
Olfr1330	A	C	4: 118,893,490	T136P	probably damaging	Het
Olfr1383	A	T	11: 49,524,578	N285I	probably damaging	Het
Olfr466	A	T	13: 65,153,063	I280F	probably damaging	Het
Olfr584	T	C	7: 103,086,151	F206S	probably damaging	Het
Olfr670	A	T	7: 104,959,811	I307N	probably benign	Het
Olfr731	A	T	14: 50,238,639	I82N	probably damaging	Het
Pcdhb5	A	G	18: 37,321,622	T352A	probably benign	Het
Pcdhb7	A	T	18: 37,343,389	D526V	probably damaging	Het
Phkg1	A	T	5: 129,864,553		probably null	Het
Plg	C	T	17: 12,418,736	T744M	probably damaging	Het
Plxnd1	A	C	6: 115,958,699		probably benign	Het
Poglut1	A	T	16: 38,529,475	I312N	probably damaging	Het
Ppp1r16a	C	T	15: 76,690,799		probably benign	Het
Ppt1	A	G	4: 122,844,099	M77V	probably benign	Het
Pramel5	G	T	4: 144,271,620	T351N	probably damaging	Het
Psmb4	G	A	3: 94,884,964	R216C	probably benign	Het
Ptprd	T	C	4: 76,084,403	T699A	probably damaging	Het
Retreg3	A	T	11: 101,098,629		probably benign	Het
Scaper	G	A	9: 55,758,056	A389V	probably damaging	Het
Serinc5	G	A	13: 92,688,737	D225N	possibly damaging	Het
Slco1a1	T	G	6: 141,925,754		probably benign	Het
Snapc1	C	T	12: 73,975,032	R81C	probably damaging	Het
Sod3	A	T	5: 52,368,079	D40V	probably benign	Het
Sorcs3	C	A	19: 48,206,295	A39E	probably benign	Het
Spon1	A	T	7: 114,039,821	T761S	probably benign	Het
Syde2	A	G	3: 146,014,249		probably null	Het
Synm	T	A	7: 67,759,168	D154V	probably benign	Het
Synpo2	T	C	3: 123,114,449	E406G	probably damaging	Het
Tcea3	T	A	4: 136,248,071	L8*	probably null	Het
Tec	G	A	5: 72,823,497	L33F	probably damaging	Het
Tex15	T	A	8: 33,582,326	S2634T	possibly damaging	Het
Tg	T	A	15: 66,729,626	Y162N	probably damaging	Het
Tmem8b	G	A	4: 43,690,123	V853I	probably benign	Het
Togaram1	A	G	12: 65,021,466	K1748E	probably damaging	Het
Ttn	T	C	2: 76,898,478		probably benign	Het
Usp36	C	T	11: 118,273,021	D234N	probably damaging	Het
Usp40	G	A	1: 87,978,522	P664S	probably benign	Het
Vmn1r54	T	A	6: 90,269,653	L183H	probably benign	Het
Vmn1r58	T	G	7: 5,410,677	I185L	probably benign	Het
Wnt8a	A	T	18: 34,547,565	R328W	probably benign	Het
Yars	A	G	4: 129,213,939		probably benign	Het
Zbtb49	A	C	5: 38,200,674	M745R	probably damaging	Het
Zeb1	T	G	18: 5,759,027	F162V	probably damaging	Het
Zfp369	A	T	13: 65,297,548	H835L	probably damaging	Het
Zic5	A	G	14: 122,463,939	V460A	unknown	Het
Zp3	A	G	5: 135,984,356	N181D	possibly damaging	Het

Other mutations in Itgad

Allele	Source	Chr	Coord	Type	Predicted Effect	PPH Score
IGL00777:Itgad	APN	7	128203850	missense	probably damaging	0.99
IGL02036:Itgad	APN	7	128189821	missense	possibly damaging	0.49
IGL02589:Itgad	APN	7	128181711	missense	probably damaging	1.00
IGL02648:Itgad	APN	7	128183374	intron	probably benign
IGL02735:Itgad	APN	7	128193716	missense	probably damaging	1.00
IGL03088:Itgad	APN	7	128203032	missense	probably benign	0.01
IGL03110:Itgad	APN	7	128185985	missense	probably damaging	1.00
BB007:Itgad	UTSW	7	128183108	missense	probably benign	0.01
BB017:Itgad	UTSW	7	128183108	missense	probably benign	0.01
R0060:Itgad	UTSW	7	128202986	missense	probably damaging	1.00
R0060:Itgad	UTSW	7	128202986	missense	probably damaging	1.00
R0184:Itgad	UTSW	7	128189231	missense	probably benign	0.02
R0211:Itgad	UTSW	7	128204641	missense	probably damaging	1.00
R0211:Itgad	UTSW	7	128204641	missense	probably damaging	1.00
R0282:Itgad	UTSW	7	128189978	splice site	probably benign
R0326:Itgad	UTSW	7	128198378	missense	probably benign	0.00
R0947:Itgad	UTSW	7	128175693	missense	probably benign	0.08
R1439:Itgad	UTSW	7	128183006	missense	probably benign	0.44
R1454:Itgad	UTSW	7	128192137	missense	probably benign	0.02
R1503:Itgad	UTSW	7	128198121	missense	probably benign	0.00
R1531:Itgad	UTSW	7	128178370	missense	probably benign	0.00
R1572:Itgad	UTSW	7	128203234	missense	probably damaging	1.00
R1602:Itgad	UTSW	7	128190939	missense	probably damaging	1.00
R1732:Itgad	UTSW	7	128205107	missense	probably benign
R2278:Itgad	UTSW	7	128205170	missense	possibly damaging	0.93
R2851:Itgad	UTSW	7	128204560	missense	probably benign	0.01
R3029:Itgad	UTSW	7	128178371	missense	possibly damaging	0.85
R3080:Itgad	UTSW	7	128185787	missense	possibly damaging	0.48
R3150:Itgad	UTSW	7	128190981	missense	possibly damaging	0.64
R3176:Itgad	UTSW	7	128190981	missense	possibly damaging	0.64
R3177:Itgad	UTSW	7	128190981	missense	possibly damaging	0.64
R3276:Itgad	UTSW	7	128190981	missense	possibly damaging	0.64
R3277:Itgad	UTSW	7	128190981	missense	possibly damaging	0.64
R3833:Itgad	UTSW	7	128186233	missense	probably damaging	1.00
R4541:Itgad	UTSW	7	128198115	missense	probably benign	0.13
R4649:Itgad	UTSW	7	128189531	missense	probably benign	0.01
R4753:Itgad	UTSW	7	128223703	makesense	probably null
R4852:Itgad	UTSW	7	128198530	missense	probably damaging	1.00
R4931:Itgad	UTSW	7	128204625	missense	probably damaging	1.00
R4970:Itgad	UTSW	7	128189843	missense	possibly damaging	0.70
R5116:Itgad	UTSW	7	128203893	missense	probably damaging	1.00
R5183:Itgad	UTSW	7	128198223	critical splice donor site	probably null
R5233:Itgad	UTSW	7	128193428	splice site	probably null
R5334:Itgad	UTSW	7	128189286	missense	probably damaging	0.99
R5731:Itgad	UTSW	7	128198554	missense	probably benign	0.19
R5760:Itgad	UTSW	7	128203365	missense	probably benign	0.02
R5896:Itgad	UTSW	7	128174016	missense	probably benign	0.34
R5955:Itgad	UTSW	7	128189481	missense	probably benign	0.00
R6247:Itgad	UTSW	7	128185787	missense	possibly damaging	0.48
R6659:Itgad	UTSW	7	128185948	missense	probably damaging	1.00
R7027:Itgad	UTSW	7	128182989	missense	probably damaging	1.00
R7104:Itgad	UTSW	7	128198378	missense	probably benign	0.00
R7120:Itgad	UTSW	7	128173974	start codon destroyed	probably null	0.02
R7272:Itgad	UTSW	7	128205073	missense	probably damaging	1.00
R7303:Itgad	UTSW	7	128190179	missense	probably benign
R7324:Itgad	UTSW	7	128189807	missense	probably damaging	1.00
R7565:Itgad	UTSW	7	128183015	missense	probably damaging	0.98
R7566:Itgad	UTSW	7	128192107	missense	probably benign	0.40
R7930:Itgad	UTSW	7	128183108	missense	probably benign	0.01
R8550:Itgad	UTSW	7	128203892	missense	probably damaging	0.98
R8816:Itgad	UTSW	7	128198370	nonsense	probably null
R8849:Itgad	UTSW	7	128189985	splice site	probably benign
R8952:Itgad	UTSW	7	128190152	missense	probably damaging	1.00
R9345:Itgad	UTSW	7	128189307	missense	probably benign	0.02
R9354:Itgad	UTSW	7	128185974	missense	probably damaging	1.00
R9526:Itgad	UTSW	7	128178380	missense	probably benign	0.09
R9614:Itgad	UTSW	7	128203850	missense	probably damaging	0.99
R9623:Itgad	UTSW	7	128204551	missense	probably damaging	1.00
R9773:Itgad	UTSW	7	128190050	missense	probably damaging	0.97
RF019:Itgad	UTSW	7	128192208	missense	probably benign	0.08
Z1176:Itgad	UTSW	7	128190087	missense	probably damaging	1.00
Z1177:Itgad	UTSW	7	128189501	missense	probably damaging	1.00

Predicted Primers

PCR Primer
(F):5'- AGGGAAAGCATTGGGCACTTCTTC -3'
(R):5'- CGACCATTTGCTCTGCTCACAGAC -3'

Sequencing Primer
(F):5'- GGGTGTCTTTTGCCTCTGC -3'
(R):5'- GACTCTGCTCATGAAAGCAAGTTAC -3'

Posted On

2013-07-11