Mutagenetix > Incidental Mutation

Incidental Mutation 'R1519:Prdm1'

167296

Institutional Source

Beutler Lab

Gene Symbol

Prdm1

Ensembl Gene

ENSMUSG00000038151

Gene Name

PR domain containing 1, with ZNF domain

Synonyms

Blimp1, b2b1765Clo, Blimp-1, PRDI-BF1

Accession Numbers

Essential gene?

Essential (E-score: 1.000) question?

Stock #

R1519 (G1)

Quality Score

225

Status

Not validated

Chromosome

Chromosomal Location

44437177-44528501 bp(-) (GRCm38)

Type of Mutation

nonsense

DNA Base Change (assembly)

A to T at 44439986 bp (GRCm38)

Zygosity

Heterozygous

Amino Acid Change

Leucine to Stop codon at position 733 (L733*)

Ref Sequence

ENSEMBL: ENSMUSP00000151237 (fasta)

Gene Model

predicted gene model for transcript(s): [ENSMUST00000039174] [ENSMUST00000105490] [ENSMUST00000218369]

AlphaFold

Q60636

Predicted Effect

probably null
Transcript: ENSMUST00000039174
AA Change: L751*

SMART Domains

Protein: ENSMUSP00000039248
Gene: ENSMUSG00000038151
AA Change: L751*

Domain	Start	End	E-Value	Type
SET	118	239	1.1e-19	SMART
low complexity region	359	393	N/A	INTRINSIC
low complexity region	541	556	N/A	INTRINSIC
ZnF_C2H2	606	628	6.42e-4	SMART
ZnF_C2H2	634	656	3.89e-3	SMART
ZnF_C2H2	662	684	7.26e-3	SMART
ZnF_C2H2	690	712	1.36e-2	SMART
ZnF_C2H2	718	738	1.12e2	SMART

Predicted Effect

probably null
Transcript: ENSMUST00000105490
AA Change: L718*

SMART Domains

Protein: ENSMUSP00000101129
Gene: ENSMUSG00000038151
AA Change: L718*

Domain	Start	End	E-Value	Type
SET	85	206	1.1e-19	SMART
low complexity region	326	360	N/A	INTRINSIC
low complexity region	508	523	N/A	INTRINSIC
ZnF_C2H2	573	595	6.42e-4	SMART
ZnF_C2H2	601	623	3.89e-3	SMART
ZnF_C2H2	629	651	7.26e-3	SMART
ZnF_C2H2	657	679	1.36e-2	SMART
ZnF_C2H2	685	705	1.12e2	SMART

Predicted Effect

probably null
Transcript: ENSMUST00000218369
AA Change: L733*

Coding Region Coverage

1x: 99.1%
3x: 98.3%
10x: 96.4%
20x: 92.9%

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 that acts as a repressor of beta-interferon gene expression. The protein binds specifically to the PRDI (positive regulatory domain I element) of the beta-IFN gene promoter. Transcription of this gene increases upon virus induction. Two alternatively spliced transcript variants that encode different isoforms have been reported. [provided by RefSeq, Jul 2008]
PHENOTYPE: Homozygous null mice display embryonic lethality and impaired primordial germ cell development, while heterozygotes display a decreased numbers of primordial germ cells but normal migration. Conditional mutants display impaired plasma cell and pre-plasmamemory B cell development. [provided by MGI curators]

Allele List at MGI

Other mutations in this stock

Total: 84 list
Gene	Ref	Var	Chr/Loc	Mutation	Predicted Effect	Zygosity
1700017N19Rik	C	G	10: 100,603,528	P187R	probably damaging	Het
9230019H11Rik	A	G	10: 3,125,230		noncoding transcript	Het
9530077C05Rik	T	G	9: 22,430,375	L114R	probably benign	Het
Abhd5	T	C	9: 122,379,014		probably null	Het
Acadvl	A	G	11: 70,014,791		probably null	Het
Actn1	T	C	12: 80,205,078	E75G	probably damaging	Het
Adam4	A	T	12: 81,420,877	N323K	possibly damaging	Het
Anks6	G	A	4: 47,027,152	R689W	probably damaging	Het
Anxa2	T	C	9: 69,485,241	I124T	probably damaging	Het
Aph1c	T	C	9: 66,833,265	T10A	probably benign	Het
Arhgap40	T	A	2: 158,546,801	W552R	probably benign	Het
Baz2b	C	T	2: 59,948,254	R754H	possibly damaging	Het
Blmh	A	G	11: 76,966,781	Y147C	probably damaging	Het
C1galt1	C	T	6: 7,866,402	L83F	probably damaging	Het
Cd163l1	G	A	7: 140,228,156	V747I	probably benign	Het
Cdh23	A	T	10: 60,379,343	Y1403N	possibly damaging	Het
Cic	A	T	7: 25,293,810		probably null	Het
Coro1b	T	A	19: 4,150,584	V200D	possibly damaging	Het
Csl	T	A	10: 99,757,955	E416V	probably damaging	Het
Cyp3a25	A	G	5: 146,001,447		probably null	Het
Dennd2d	T	A	3: 106,492,559	F266Y	probably damaging	Het
Dnah10	A	G	5: 124,760,952	E1072G	probably damaging	Het
Dnah6	T	A	6: 73,049,048	K3435N	probably damaging	Het
Dnah9	G	A	11: 65,881,761	A3715V	probably damaging	Het
Fam186a	G	A	15: 99,947,655	S236L	unknown	Het
Fam198b	A	G	3: 79,941,464	N506D	possibly damaging	Het
Frs3	A	G	17: 47,702,978	T199A	probably benign	Het
Fsd1	A	G	17: 55,993,870	N243S	probably benign	Het
Gabra5	A	C	7: 57,408,893	L369R	probably benign	Het
Gins4	A	G	8: 23,234,776	V54A	probably benign	Het
Gli1	T	C	10: 127,334,269	E339G	possibly damaging	Het
Gm12185	A	G	11: 48,907,767	V633A	probably damaging	Het
Gm8251	A	G	1: 44,056,970	V1656A	probably benign	Het
Gm8765	G	A	13: 50,700,407		probably null	Het
Gpr83	T	A	9: 14,868,197	C182S	probably null	Het
Gspt1	A	G	16: 11,220,855	V627A	probably damaging	Het
Heatr1	T	C	13: 12,412,159	C722R	probably benign	Het
Jak1	C	T	4: 101,162,922	R680Q	probably damaging	Het
Kif2c	A	G	4: 117,169,940	V287A	probably damaging	Het
Kmo	A	G	1: 175,656,802	E366G	probably damaging	Het
Kmo	C	T	1: 175,651,618	P240L	possibly damaging	Het
Lepr	A	T	4: 101,789,344	N824I	probably damaging	Het
Lyrm7	T	A	11: 54,848,599	H75L	possibly damaging	Het
Map4k1	A	T	7: 28,991,036	Q351L	probably benign	Het
Mgam	T	C	6: 40,661,683	I450T	probably benign	Het
Nbeal2	A	G	9: 110,636,305	L955P	probably damaging	Het
Nlrp9c	T	C	7: 26,378,101	K752R	possibly damaging	Het
Nsmaf	A	T	4: 6,438,062	I70K	probably benign	Het
Olfr201	C	T	16: 59,268,944	C241Y	probably damaging	Het
Olfr298	A	G	7: 86,489,125	M142T	probably damaging	Het
Otud7a	A	G	7: 63,758,643	Y898C	probably damaging	Het
Pcdhb18	A	C	18: 37,490,892	D425A	probably damaging	Het
Prdm2	A	T	4: 143,135,583	I379N	probably damaging	Het
Ptprg	A	T	14: 12,220,596	Y436F	probably damaging	Het
Riok3	A	G	18: 12,137,306	D167G	probably damaging	Het
Rnf215	G	T	11: 4,135,451	R60L	probably damaging	Het
Sdk1	A	T	5: 141,999,950	H779L	probably benign	Het
Serpine2	A	G	1: 79,795,031	F390L	probably damaging	Het
Sh3d21	T	A	4: 126,151,726	K387*	probably null	Het
Slc13a2	T	C	11: 78,397,746	Y568C	possibly damaging	Het
Slc27a5	T	C	7: 12,988,459		probably null	Het
Slc32a1	T	C	2: 158,614,577	L384P	probably damaging	Het
Sorcs1	T	C	19: 50,252,587	N454D	probably benign	Het
Spag8	T	C	4: 43,652,777	Y228C	possibly damaging	Het
Spc25	T	C	2: 69,200,087	I71V	probably damaging	Het
Tcte1	T	A	17: 45,535,252	F261I	probably damaging	Het
Thsd7a	T	A	6: 12,471,175	K481N	probably benign	Het
Tll2	G	T	19: 41,086,400	N908K	probably benign	Het
Tmem236	T	C	2: 14,192,280	V93A	probably benign	Het
Top2b	G	A	14: 16,408,953		probably null	Het
Topaz1	G	A	9: 122,767,011	S949N	probably benign	Het
Triobp	A	G	15: 78,973,738	T1180A	probably benign	Het
Trip11	A	C	12: 101,886,160	D548E	probably benign	Het
Trpv2	T	A	11: 62,589,826		probably null	Het
Vmn1r12	T	A	6: 57,159,555	H212Q	probably damaging	Het
Vmn2r112	A	G	17: 22,618,903	T782A	possibly damaging	Het
Vmn2r7	A	G	3: 64,716,455	V239A	possibly damaging	Het
Vmn2r80	T	A	10: 79,194,219	N626K	probably damaging	Het
Vmn2r99	A	G	17: 19,380,060	S449G	probably benign	Het
Wfikkn2	T	C	11: 94,238,107	T403A	probably benign	Het
Xirp2	A	G	2: 67,515,679	I2755V	probably benign	Het
Yjefn3	A	G	8: 69,889,079	V153A	probably benign	Het
Zfp677	C	A	17: 21,397,237	H185Q	possibly damaging	Het
Zfp947	C	T	17: 22,146,292	V134I	probably benign	Het

Other mutations in Prdm1

Allele	Source	Chr	Coord	Type	Predicted Effect	PPH Score
IGL00657:Prdm1	APN	10	44441892	missense	probably damaging	1.00
IGL01331:Prdm1	APN	10	44441974	missense	possibly damaging	0.67
IGL02064:Prdm1	APN	10	44441342	missense	probably damaging	1.00
IGL02669:Prdm1	APN	10	44439884	missense	probably benign	0.28
IGL02944:Prdm1	APN	10	44441811	missense	probably benign
IGL03295:Prdm1	APN	10	44439870	missense	probably damaging	0.99
PIT4576001:Prdm1	UTSW	10	44458508	start codon destroyed	probably null	0.05
R0008:Prdm1	UTSW	10	44441679	missense	probably damaging	1.00
R0166:Prdm1	UTSW	10	44440091	missense	probably damaging	1.00
R0226:Prdm1	UTSW	10	44456696	missense	probably benign	0.03
R0284:Prdm1	UTSW	10	44456626	missense	probably damaging	1.00
R0398:Prdm1	UTSW	10	44439809	missense	probably damaging	1.00
R1200:Prdm1	UTSW	10	44450130	missense	probably damaging	1.00
R1405:Prdm1	UTSW	10	44439965	missense	probably damaging	1.00
R1405:Prdm1	UTSW	10	44439965	missense	probably damaging	1.00
R1438:Prdm1	UTSW	10	44442128	missense	probably benign	0.00
R1886:Prdm1	UTSW	10	44439758	missense	probably damaging	0.99
R2070:Prdm1	UTSW	10	44441412	missense	possibly damaging	0.82
R2508:Prdm1	UTSW	10	44446807	missense	probably benign	0.37
R3087:Prdm1	UTSW	10	44446827	missense	probably damaging	1.00
R3150:Prdm1	UTSW	10	44458492	splice site	probably null
R4165:Prdm1	UTSW	10	44441576	missense	probably benign	0.11
R4490:Prdm1	UTSW	10	44446907	nonsense	probably null
R4647:Prdm1	UTSW	10	44439690	missense	probably damaging	0.98
R4911:Prdm1	UTSW	10	44442052	missense	possibly damaging	0.90
R4925:Prdm1	UTSW	10	44440169	missense	probably damaging	1.00
R5153:Prdm1	UTSW	10	44450225	missense	possibly damaging	0.94
R5247:Prdm1	UTSW	10	44440102	missense	probably damaging	1.00
R5792:Prdm1	UTSW	10	44450228	missense	probably damaging	1.00
R6164:Prdm1	UTSW	10	44450195	missense	probably damaging	1.00
R6247:Prdm1	UTSW	10	44446786	splice site	probably null
R7196:Prdm1	UTSW	10	44456992	missense	probably benign	0.14
R7270:Prdm1	UTSW	10	44441570	missense	probably benign	0.07
R7384:Prdm1	UTSW	10	44458507	missense	probably benign	0.01
R7822:Prdm1	UTSW	10	44458482	missense	probably benign	0.01
R8809:Prdm1	UTSW	10	44439753	missense	probably benign
R8827:Prdm1	UTSW	10	44458480	missense	probably benign	0.00
R8932:Prdm1	UTSW	10	44441339	missense	probably damaging	1.00
R8958:Prdm1	UTSW	10	44440733	missense	probably damaging	1.00
R9009:Prdm1	UTSW	10	44447001	missense	probably benign	0.02
R9020:Prdm1	UTSW	10	44440040	missense	probably damaging	1.00
R9176:Prdm1	UTSW	10	44440127	missense	probably damaging	1.00
R9378:Prdm1	UTSW	10	44440154	missense	probably damaging	1.00
R9471:Prdm1	UTSW	10	44450178	missense	probably damaging	1.00
R9535:Prdm1	UTSW	10	44441612	missense	probably damaging	1.00
R9554:Prdm1	UTSW	10	44441246	missense	probably benign	0.01
Z1088:Prdm1	UTSW	10	44441925	missense	probably damaging	1.00
Z1176:Prdm1	UTSW	10	44446833	missense	probably damaging	1.00

Predicted Primers

PCR Primer
(F):5'- TCCGATGACTCATAGAGGCTGCAC -3'
(R):5'- TCAAGACCCACCTTCGATTGCATTC -3'

Sequencing Primer
(F):5'- ATAGAGGCTGCACCCTGAG -3'
(R):5'- CGATTGCATTCTGGAGAAAAACC -3'

Posted On

2014-04-13