Mutagenetix > Incidental Mutation

Incidental Mutation 'R9546:Gli3'

720139

Institutional Source

Beutler Lab

Gene Symbol

Gli3

Ensembl Gene

ENSMUSG00000021318

Gene Name

GLI-Kruppel family member GLI3

Synonyms

brachyphalangy, Bph

MMRRC Submission

Accession Numbers

Essential gene?

Essential (E-score: 1.000) question?

Stock #

R9546 (G1)

Quality Score

225.009

Status

Not validated

Chromosome

Chromosomal Location

15463235-15730026 bp(+) (GRCm38)

Type of Mutation

missense

DNA Base Change (assembly)

T to A at 15613858 bp (GRCm38)

Zygosity

Heterozygous

Amino Acid Change

Aspartic acid to Glutamic Acid at position 149 (D149E)

Ref Sequence

ENSEMBL: ENSMUSP00000106137 (fasta)

Gene Model

predicted gene model for transcript(s): [ENSMUST00000110510] [ENSMUST00000130065] [ENSMUST00000141194]

AlphaFold

Q61602

Predicted Effect

probably benign
Transcript: ENSMUST00000110510
AA Change: D149E

PolyPhen 2 Score 0.003 (Sensitivity: 0.98; Specificity: 0.44)

SMART Domains

Protein: ENSMUSP00000106137
Gene: ENSMUSG00000021318
AA Change: D149E

Domain	Start	End	E-Value	Type
low complexity region	120	136	N/A	INTRINSIC
low complexity region	204	220	N/A	INTRINSIC
low complexity region	324	341	N/A	INTRINSIC
low complexity region	403	421	N/A	INTRINSIC
ZnF_C2H2	480	505	1.53e-1	SMART
ZnF_C2H2	513	540	1.23e0	SMART
ZnF_C2H2	546	570	3.16e-3	SMART
ZnF_C2H2	576	601	4.17e-3	SMART
ZnF_C2H2	607	632	1.4e-4	SMART
low complexity region	703	726	N/A	INTRINSIC
low complexity region	756	763	N/A	INTRINSIC
low complexity region	849	880	N/A	INTRINSIC
low complexity region	934	944	N/A	INTRINSIC
low complexity region	1024	1038	N/A	INTRINSIC
low complexity region	1081	1095	N/A	INTRINSIC
low complexity region	1166	1175	N/A	INTRINSIC

Predicted Effect

probably benign
Transcript: ENSMUST00000130065
AA Change: D149E

PolyPhen 2 Score 0.003 (Sensitivity: 0.98; Specificity: 0.44)

SMART Domains

Protein: ENSMUSP00000115989
Gene: ENSMUSG00000021318
AA Change: D149E

Domain	Start	End	E-Value	Type
low complexity region	120	136	N/A	INTRINSIC
low complexity region	204	220	N/A	INTRINSIC
low complexity region	324	341	N/A	INTRINSIC
low complexity region	403	421	N/A	INTRINSIC
ZnF_C2H2	480	505	1.53e-1	SMART
ZnF_C2H2	513	540	1.23e0	SMART
ZnF_C2H2	546	570	3.16e-3	SMART
ZnF_C2H2	576	596	1.45e2	SMART

Predicted Effect

probably damaging
Transcript: ENSMUST00000141194
AA Change: I12N

PolyPhen 2 Score 0.985 (Sensitivity: 0.74; Specificity: 0.96)

Coding Region Coverage

1x: 100.0%
3x: 99.9%
10x: 99.5%
20x: 98.1%

Validation Efficiency

MGI Phenotype

FUNCTION: [Summary is not available for the mouse gene. This summary is for the human ortholog.] This gene encodes a protein which belongs to the C2H2-type zinc finger proteins subclass of the Gli family. They are characterized as DNA-binding transcription factors and are mediators of Sonic hedgehog (Shh) signaling. The protein encoded by this gene localizes in the cytoplasm and activates patched Drosophila homolog (PTCH) gene expression. It is also thought to play a role during embryogenesis. Mutations in this gene have been associated with several diseases, including Greig cephalopolysyndactyly syndrome, Pallister-Hall syndrome, preaxial polydactyly type IV, and postaxial polydactyly types A1 and B. [provided by RefSeq, Jul 2008]
PHENOTYPE: Homozygous mutants die perinatally with gross polydactyly, multiple craniofacial defects, and frequently, exencephaly. Heterozygotes exhibit enlarged interfrontal bone and extra preaxial digits. [provided by MGI curators]

Allele List at MGI

Other mutations in this stock

Total: 62 list
Gene	Ref	Var	Chr/Loc	Mutation	Predicted Effect	Zygosity
Abca6	G	A	11: 110,244,216 (GRCm38)	Q248*	probably null	Het
Adgrf4	A	T	17: 42,667,392 (GRCm38)	C353*	probably null	Het
Aifm3	T	C	16: 17,499,740 (GRCm38)	V75A	probably benign	Het
Apc	A	G	18: 34,312,258 (GRCm38)	K736E	possibly damaging	Het
Atad2	A	G	15: 58,126,577 (GRCm38)	S168P	probably damaging	Het
Ccdc122	T	A	14: 77,068,873 (GRCm38)	V28E	probably damaging	Het
Cd5l	T	C	3: 87,360,894 (GRCm38)	V16A	probably benign	Het
Cdk11b	T	C	4: 155,649,132 (GRCm38)	S682P	unknown	Het
Chd8	T	C	14: 52,215,951 (GRCm38)	I1218V	probably damaging	Het
Clec1b	A	C	6: 129,405,204 (GRCm38)	I215L	probably benign	Het
Dnah14	A	C	1: 181,593,427 (GRCm38)		probably null	Het
Ednrb	T	C	14: 103,843,023 (GRCm38)	I152V	probably benign	Het
Epha8	G	T	4: 136,938,586 (GRCm38)	L420M	probably damaging	Het
Epn2	T	C	11: 61,546,581 (GRCm38)	E55G	probably damaging	Het
Ern1	A	G	11: 106,410,027 (GRCm38)	S514P	probably benign	Het
Fbxo4	G	A	15: 3,969,011 (GRCm38)	P322S	probably damaging	Het
Gm10436	C	A	12: 88,181,881 (GRCm38)		probably benign	Het
Gm12258	A	G	11: 58,859,096 (GRCm38)	K366E	unknown	Het
Gm9195	G	T	14: 72,480,907 (GRCm38)	H110N	possibly damaging	Het
Grb10	A	G	11: 11,943,919 (GRCm38)	I389T	probably benign	Het
Grip1	G	A	10: 120,038,664 (GRCm38)	E778K	possibly damaging	Het
Hexb	T	C	13: 97,185,668 (GRCm38)	D203G	probably damaging	Het
Hhatl	A	G	9: 121,789,583 (GRCm38)	Y118H	probably damaging	Het
Ighv1-69	A	G	12: 115,623,265 (GRCm38)	F83L	possibly damaging	Het
Iglon5	A	T	7: 43,474,467 (GRCm38)	M336K	probably benign	Het
Iyd	A	T	10: 3,551,884 (GRCm38)	I177F	possibly damaging	Het
Kdm4c	A	C	4: 74,404,867 (GRCm38)	D1012A	possibly damaging	Het
Klhl12	T	A	1: 134,485,824 (GRCm38)	L349Q	probably damaging	Het
Lrp2	A	G	2: 69,456,821 (GRCm38)		probably null	Het
Mrm2	T	A	5: 140,328,579 (GRCm38)	H167L	probably damaging	Het
Mrpl50	T	A	4: 49,514,338 (GRCm38)	H111L	probably damaging	Het
Nags	A	T	11: 102,148,255 (GRCm38)	T471S	probably damaging	Het
Nod2	A	T	8: 88,652,993 (GRCm38)	R41W	probably benign	Het
Notch1	T	A	2: 26,481,115 (GRCm38)	N320Y	probably damaging	Het
Nr2c1	A	G	10: 94,190,666 (GRCm38)	K468E	possibly damaging	Het
Nsf	G	A	11: 103,910,449 (GRCm38)	Q247*	probably null	Het
Obsl1	T	C	1: 75,505,386 (GRCm38)	H280R	probably damaging	Het
Olfr1181	T	C	2: 88,423,705 (GRCm38)	M107V	probably benign	Het
Pcdha3	C	T	18: 36,946,336 (GRCm38)	R44C	probably damaging	Het
Pcsk4	A	G	10: 80,321,907 (GRCm38)	S623P	possibly damaging	Het
Pdcd6ip	A	T	9: 113,655,106 (GRCm38)	Y818N	unknown	Het
Plk2	T	A	13: 110,398,767 (GRCm38)	I445K	possibly damaging	Het
Prdm2	A	T	4: 143,134,991 (GRCm38)	S576R	probably damaging	Het
Prl3d1	A	T	13: 27,094,999 (GRCm38)	Y59F	probably benign	Het
Ptprj	C	T	2: 90,444,461 (GRCm38)	V1186I	probably benign	Het
Raly	AGCAGCAGTGGTGGAGGAGGAGGCAGCAGTGGTGGAGG	AGCAGCAGTGGTGGAGG	2: 154,863,834 (GRCm38)		probably benign	Het
Ros1	C	T	10: 52,118,119 (GRCm38)		probably null	Het
Ryr2	C	T	13: 11,587,215 (GRCm38)		probably null	Het
Scn7a	A	T	2: 66,752,259 (GRCm38)	I98N	possibly damaging	Het
Soga3	C	A	10: 29,146,809 (GRCm38)	R51S	probably damaging	Het
Spi1	T	A	2: 91,113,272 (GRCm38)	S54T	probably benign	Het
Ssna1	C	T	2: 25,272,304 (GRCm38)	V16I	probably benign	Het
Sult3a2	G	A	10: 33,779,674 (GRCm38)	P103L	possibly damaging	Het
Syne1	C	T	10: 5,243,123 (GRCm38)	G3975D	probably damaging	Het
Tbc1d1	T	C	5: 64,173,607 (GRCm38)	V43A	possibly damaging	Het
Uba5	A	G	9: 104,054,368 (GRCm38)	S222P	probably damaging	Het
Vmn2r24	A	C	6: 123,787,307 (GRCm38)	E381A	probably damaging	Het
Vmn2r95	G	A	17: 18,441,459 (GRCm38)	G489D	probably benign	Het
Wdr17	A	T	8: 54,659,700 (GRCm38)	F789I	probably damaging	Het
Xpnpep1	A	T	19: 53,002,528 (GRCm38)	L422Q	probably damaging	Het
Zcchc11	A	G	4: 108,513,232 (GRCm38)	D776G	probably benign	Het
Zfand3	T	A	17: 30,153,328 (GRCm38)	H107Q	probably benign	Het

Other mutations in Gli3

Allele	Source	Chr	Coord	Type	Predicted Effect	PPH Score
IGL00417:Gli3	APN	13	15,644,299 (GRCm38)	missense	probably damaging	1.00
IGL00471:Gli3	APN	13	15,723,769 (GRCm38)	critical splice donor site	probably null
IGL00484:Gli3	APN	13	15,644,392 (GRCm38)	missense	possibly damaging	0.84
IGL00588:Gli3	APN	13	15,644,392 (GRCm38)	missense	possibly damaging	0.84
IGL01161:Gli3	APN	13	15,548,398 (GRCm38)	critical splice acceptor site	probably null
IGL01633:Gli3	APN	13	15,648,634 (GRCm38)	missense	probably damaging	1.00
IGL01799:Gli3	APN	13	15,726,161 (GRCm38)	missense	probably benign	0.00
IGL01861:Gli3	APN	13	15,725,325 (GRCm38)	missense	probably damaging	1.00
IGL02063:Gli3	APN	13	15,726,372 (GRCm38)	missense	possibly damaging	0.94
IGL02112:Gli3	APN	13	15,662,514 (GRCm38)	missense	probably damaging	1.00
IGL02255:Gli3	APN	13	15,648,719 (GRCm38)	missense	probably damaging	1.00
IGL02270:Gli3	APN	13	15,726,786 (GRCm38)	utr 3 prime	probably benign
IGL02336:Gli3	APN	13	15,720,289 (GRCm38)	missense	probably damaging	1.00
IGL02346:Gli3	APN	13	15,723,693 (GRCm38)	missense	probably damaging	1.00
IGL02744:Gli3	APN	13	15,613,886 (GRCm38)	critical splice donor site	probably null
IGL02877:Gli3	APN	13	15,724,742 (GRCm38)	missense	probably damaging	1.00
IGL02975:Gli3	APN	13	15,724,568 (GRCm38)	missense	probably damaging	1.00
IGL03018:Gli3	APN	13	15,660,132 (GRCm38)	missense	probably damaging	1.00
IGL03378:Gli3	APN	13	15,644,420 (GRCm38)	missense	probably damaging	1.00
IGL03406:Gli3	APN	13	15,648,581 (GRCm38)	missense	probably damaging	1.00
Capone	UTSW	13	15,715,034 (GRCm38)	missense	probably damaging	1.00
Carpals	UTSW	13	15,713,650 (GRCm38)	critical splice donor site	probably null
Ness	UTSW	13	15,723,555 (GRCm38)	missense	probably damaging	1.00
FR4737:Gli3	UTSW	13	15,644,357 (GRCm38)	missense	probably damaging	1.00
R0110:Gli3	UTSW	13	15,724,785 (GRCm38)	missense	probably damaging	1.00
R0329:Gli3	UTSW	13	15,723,558 (GRCm38)	missense	probably damaging	0.98
R0330:Gli3	UTSW	13	15,723,558 (GRCm38)	missense	probably damaging	0.98
R0360:Gli3	UTSW	13	15,724,764 (GRCm38)	missense	probably benign	0.32
R0364:Gli3	UTSW	13	15,724,764 (GRCm38)	missense	probably benign	0.32
R0469:Gli3	UTSW	13	15,724,785 (GRCm38)	missense	probably damaging	1.00
R0616:Gli3	UTSW	13	15,662,406 (GRCm38)	missense	possibly damaging	0.75
R0639:Gli3	UTSW	13	15,724,715 (GRCm38)	missense	probably damaging	1.00
R1072:Gli3	UTSW	13	15,713,605 (GRCm38)	missense	probably damaging	1.00
R1257:Gli3	UTSW	13	15,725,996 (GRCm38)	nonsense	probably null
R1270:Gli3	UTSW	13	15,723,744 (GRCm38)	missense	probably benign	0.02
R1424:Gli3	UTSW	13	15,726,314 (GRCm38)	missense	probably benign	0.00
R1481:Gli3	UTSW	13	15,613,850 (GRCm38)	missense	probably damaging	0.99
R1596:Gli3	UTSW	13	15,725,471 (GRCm38)	missense	possibly damaging	0.74
R1628:Gli3	UTSW	13	15,726,312 (GRCm38)	missense	probably benign	0.00
R1721:Gli3	UTSW	13	15,726,297 (GRCm38)	missense	probably benign	0.27
R1797:Gli3	UTSW	13	15,713,512 (GRCm38)	missense	probably damaging	0.99
R1813:Gli3	UTSW	13	15,648,691 (GRCm38)	missense	probably damaging	1.00
R1819:Gli3	UTSW	13	15,725,792 (GRCm38)	nonsense	probably null
R1988:Gli3	UTSW	13	15,726,380 (GRCm38)	missense	probably benign
R2132:Gli3	UTSW	13	15,725,549 (GRCm38)	missense	possibly damaging	0.74
R2352:Gli3	UTSW	13	15,662,392 (GRCm38)	missense	probably benign	0.02
R3085:Gli3	UTSW	13	15,660,941 (GRCm38)	missense	probably damaging	1.00
R3177:Gli3	UTSW	13	15,725,982 (GRCm38)	missense	probably benign	0.28
R3277:Gli3	UTSW	13	15,725,982 (GRCm38)	missense	probably benign	0.28
R4162:Gli3	UTSW	13	15,725,115 (GRCm38)	missense	possibly damaging	0.93
R4497:Gli3	UTSW	13	15,723,571 (GRCm38)	missense	possibly damaging	0.74
R4526:Gli3	UTSW	13	15,713,631 (GRCm38)	missense	probably damaging	1.00
R4979:Gli3	UTSW	13	15,724,464 (GRCm38)	missense	possibly damaging	0.87
R5327:Gli3	UTSW	13	15,548,507 (GRCm38)	missense	probably damaging	0.99
R5395:Gli3	UTSW	13	15,714,950 (GRCm38)	missense	probably damaging	1.00
R5494:Gli3	UTSW	13	15,725,982 (GRCm38)	missense	probably benign	0.28
R5609:Gli3	UTSW	13	15,548,453 (GRCm38)	missense	possibly damaging	0.82
R5718:Gli3	UTSW	13	15,478,165 (GRCm38)	critical splice donor site	probably null
R5810:Gli3	UTSW	13	15,644,309 (GRCm38)	missense	probably damaging	0.99
R5896:Gli3	UTSW	13	15,726,180 (GRCm38)	missense	probably benign	0.00
R5930:Gli3	UTSW	13	15,548,625 (GRCm38)	missense	probably damaging	1.00
R5964:Gli3	UTSW	13	15,726,162 (GRCm38)	nonsense	probably null
R5985:Gli3	UTSW	13	15,723,555 (GRCm38)	missense	probably damaging	1.00
R6224:Gli3	UTSW	13	15,725,145 (GRCm38)	missense	probably benign
R6278:Gli3	UTSW	13	15,725,113 (GRCm38)	missense	possibly damaging	0.69
R6330:Gli3	UTSW	13	15,724,732 (GRCm38)	missense	probably damaging	1.00
R6383:Gli3	UTSW	13	15,723,555 (GRCm38)	missense	probably damaging	1.00
R6523:Gli3	UTSW	13	15,713,650 (GRCm38)	critical splice donor site	probably null
R7072:Gli3	UTSW	13	15,725,695 (GRCm38)	missense	possibly damaging	0.51
R7085:Gli3	UTSW	13	15,715,062 (GRCm38)	missense	probably damaging	1.00
R7228:Gli3	UTSW	13	15,724,502 (GRCm38)	missense	probably benign	0.00
R7327:Gli3	UTSW	13	15,725,559 (GRCm38)	missense	probably benign	0.02
R7451:Gli3	UTSW	13	15,726,291 (GRCm38)	missense	possibly damaging	0.50
R7974:Gli3	UTSW	13	15,726,256 (GRCm38)	missense	probably benign	0.00
R8167:Gli3	UTSW	13	15,725,643 (GRCm38)	missense	probably benign	0.00
R8170:Gli3	UTSW	13	15,720,208 (GRCm38)	missense	probably benign
R8199:Gli3	UTSW	13	15,725,991 (GRCm38)	missense	probably benign	0.08
R8247:Gli3	UTSW	13	15,726,775 (GRCm38)	missense	possibly damaging	0.82
R8332:Gli3	UTSW	13	15,713,548 (GRCm38)	missense	possibly damaging	0.58
R8347:Gli3	UTSW	13	15,723,525 (GRCm38)	missense	probably damaging	1.00
R8559:Gli3	UTSW	13	15,660,132 (GRCm38)	missense	probably damaging	1.00
R8676:Gli3	UTSW	13	15,715,034 (GRCm38)	missense	probably damaging	1.00
R8905:Gli3	UTSW	13	15,726,531 (GRCm38)	missense	probably benign	0.01
R9099:Gli3	UTSW	13	15,726,735 (GRCm38)	missense	probably damaging	1.00
R9260:Gli3	UTSW	13	15,725,090 (GRCm38)	missense	probably damaging	0.99
R9317:Gli3	UTSW	13	15,715,073 (GRCm38)	missense	probably damaging	1.00
R9475:Gli3	UTSW	13	15,725,711 (GRCm38)	missense	possibly damaging	0.87
R9571:Gli3	UTSW	13	15,726,273 (GRCm38)	missense	probably benign	0.00
R9621:Gli3	UTSW	13	15,726,668 (GRCm38)	missense	probably benign	0.01
R9704:Gli3	UTSW	13	15,723,473 (GRCm38)	missense	probably damaging	1.00
R9787:Gli3	UTSW	13	15,725,801 (GRCm38)	missense	probably damaging	0.96
RF010:Gli3	UTSW	13	15,726,369 (GRCm38)	missense	probably damaging	1.00

Predicted Primers

PCR Primer
(F):5'- ACAACAGGTACAATTAAGAAGACTCTG -3'
(R):5'- GGAGCAGATAGAGCTTTGCTG -3'

Sequencing Primer
(F):5'- AGGGTGCTTAATCACTGACC -3'
(R):5'- CAAAGAGTCCTGAAGCCT -3'

Posted On

2022-07-18