Mutagenetix > Incidental Mutation

Incidental Mutation 'R8145:Rfx1'

632753

Institutional Source

Beutler Lab

Gene Symbol

Rfx1

Ensembl Gene

ENSMUSG00000031706

Gene Name

regulatory factor X, 1 (influences HLA class II expression)

Synonyms

MMRRC Submission

067573-MU

Accession Numbers

Essential gene?

Essential (E-score: 1.000) question?

Stock #

R8145 (G1)

Quality Score

191.009

Status

Validated

Chromosome

Chromosomal Location

84793463-84823621 bp(+) (GRCm39)

Type of Mutation

missense

DNA Base Change (assembly)

C to T at 84800657 bp (GRCm39)

Zygosity

Heterozygous

Amino Acid Change

Proline to Leucine at position 86 (P86L)

Ref Sequence

ENSEMBL: ENSMUSP00000005600 (fasta)

Gene Model

predicted gene model for transcript(s): [ENSMUST00000005600] [ENSMUST00000211046]

AlphaFold

P48377

Predicted Effect

probably benign
Transcript: ENSMUST00000005600
AA Change: P86L

PolyPhen 2 Score 0.057 (Sensitivity: 0.94; Specificity: 0.84)

SMART Domains

Protein: ENSMUSP00000005600
Gene: ENSMUSG00000031706
AA Change: P86L

Domain	Start	End	E-Value	Type
low complexity region	11	47	N/A	INTRINSIC
low complexity region	53	67	N/A	INTRINSIC
low complexity region	73	92	N/A	INTRINSIC
Pfam:RFX1_trans_act	106	176	9.6e-9	PFAM
Pfam:RFX1_trans_act	211	366	1.8e-59	PFAM
Pfam:RFX_DNA_binding	420	498	2.5e-35	PFAM
Blast:HisKA	705	768	3e-28	BLAST
low complexity region	908	920	N/A	INTRINSIC
low complexity region	932	948	N/A	INTRINSIC

Predicted Effect

probably benign
Transcript: ENSMUST00000211046
AA Change: P86L

PolyPhen 2 Score 0.018 (Sensitivity: 0.95; Specificity: 0.80)

Coding Region Coverage

1x: 99.7%
3x: 99.5%
10x: 97.9%
20x: 90.4%

Validation Efficiency

100% (79/79)

MGI Phenotype

FUNCTION: [Summary is not available for the mouse gene. This summary is for the human ortholog.] This gene encodes a member of the regulatory factor X (RFX) family of transcription factors, which are characterized by a winged-helix DNA-binding domain. The encoded transcription factor contains an N-terminal activation domain and a C-terminal repression domain, and may activate or repress target gene expression depending on cellular context. This transcription factor has been shown to regulate a wide variety of genes involved in immunity and cancer, including the MHC class II genes and genes that may be involved in cancer progression. This gene exhibits altered expression in glioblastoma and the autoimmune disease systemic lupus erythematosis (SLE). [provided by RefSeq, Jul 2016]
PHENOTYPE: Mice homozygous for a gene trap allele die prior to implantation. [provided by MGI curators]

Allele List at MGI

Other mutations in this stock

Total: 75 list
Gene	Ref	Var	Chr/Loc	Mutation	Predicted Effect	Zygosity
Alg6	A	T	4: 99,634,564 (GRCm39)	D273V	probably damaging	Het
Ankk1	T	A	9: 49,327,097 (GRCm39)	H694L	possibly damaging	Het
Asb7	G	T	7: 66,309,696 (GRCm39)	N173K	probably benign	Het
Atp10b	A	T	11: 43,092,949 (GRCm39)	Q428L	probably damaging	Het
Bag3	A	G	7: 128,147,612 (GRCm39)	E409G	possibly damaging	Het
Bltp1	T	C	3: 37,052,416 (GRCm39)	S3039P	probably damaging	Het
Bpifb2	T	A	2: 153,733,232 (GRCm39)	V398E	probably damaging	Het
Btf3l4b	A	T	13: 96,217,649 (GRCm39)	D63E	probably benign	Het
Ccr6	T	C	17: 8,474,945 (GRCm39)	V50A	probably benign	Het
Cdcp3	G	T	7: 130,898,045 (GRCm39)	V2088L	unknown	Het
Cdx1	T	C	18: 61,152,995 (GRCm39)	N204D	probably damaging	Het
Ciao1	T	C	2: 127,087,726 (GRCm39)	D203G	possibly damaging	Het
Cldn7	A	T	11: 69,856,892 (GRCm39)	Y47F	possibly damaging	Het
Col6a1	A	T	10: 76,559,305 (GRCm39)	D110E	possibly damaging	Het
Cpne6	C	A	14: 55,752,025 (GRCm39)	Q261K	probably benign	Het
Crebbp	T	C	16: 3,946,389 (GRCm39)	T497A	probably benign	Het
Cyp2s1	A	G	7: 25,507,467 (GRCm39)		probably null	Het
Ddx42	A	T	11: 106,130,887 (GRCm39)	I454F	possibly damaging	Het
Ddx5	G	T	11: 106,672,911 (GRCm39)	A538E	probably benign	Het
Dnajb1	T	A	8: 84,336,944 (GRCm39)	V238D	probably damaging	Het
Dntt	A	G	19: 41,044,224 (GRCm39)	Y463C	probably damaging	Het
Eif4b	A	G	15: 102,001,423 (GRCm39)	T437A	unknown	Het
Eppk1	T	C	15: 75,990,900 (GRCm39)	T1994A	possibly damaging	Het
Fbxw15	A	T	9: 109,384,658 (GRCm39)	C381S	probably benign	Het
Fosl2	T	A	5: 32,310,412 (GRCm39)	V287D	probably damaging	Het
Gdpd4	A	G	7: 97,690,077 (GRCm39)	T590A	probably benign	Het
Gm49368	A	G	7: 127,712,487 (GRCm39)	E877G	probably null	Het
Grin2b	C	T	6: 135,709,497 (GRCm39)	A1350T	probably benign	Het
Gzmk	A	G	13: 113,308,430 (GRCm39)	L257P	probably damaging	Het
Has2	T	A	15: 56,545,175 (GRCm39)	K142N	probably benign	Het
Hectd1	T	C	12: 51,831,016 (GRCm39)	E944G	possibly damaging	Het
Hmcn1	T	C	1: 150,629,411 (GRCm39)	R949G	probably benign	Het
Hmcn2	A	G	2: 31,313,117 (GRCm39)	E3442G	probably damaging	Het
Irf9	T	A	14: 55,843,255 (GRCm39)	C152*	probably null	Het
Itga3	A	G	11: 94,943,290 (GRCm39)	W936R	probably damaging	Het
Klhl11	G	T	11: 100,354,740 (GRCm39)	D360E	probably damaging	Het
Lnx1	G	A	5: 74,846,060 (GRCm39)	T130I	probably benign	Het
Lrrc36	C	T	8: 106,170,396 (GRCm39)	P82L	probably damaging	Het
Map4k4	T	C	1: 40,039,694 (GRCm39)	C29R		Het
Mki67	T	C	7: 135,296,065 (GRCm39)	K2990E	probably benign	Het
Mnt	G	A	11: 74,733,799 (GRCm39)	A477T	unknown	Het
Mroh9	A	G	1: 162,890,096 (GRCm39)	S214P	probably benign	Het
Mrps18b	C	A	17: 36,225,293 (GRCm39)	R94L	possibly damaging	Het
Myh6	T	A	14: 55,191,382 (GRCm39)	I820F	probably benign	Het
Nphp3	A	G	9: 103,913,050 (GRCm39)	T943A	probably benign	Het
Or51a25	C	A	7: 102,372,937 (GRCm39)	L253F	probably damaging	Het
Or52b4i	A	G	7: 102,191,830 (GRCm39)	H229R	probably benign	Het
Papolb	T	C	5: 142,514,353 (GRCm39)	D430G	probably benign	Het
Pdzd2	T	C	15: 12,407,458 (GRCm39)	H334R	probably benign	Het
Pkd1l2	T	A	8: 117,781,742 (GRCm39)	M768L	probably benign	Het
Pklr	G	T	3: 89,052,795 (GRCm39)	R547L	probably benign	Het
Pla2g4a	T	C	1: 149,716,394 (GRCm39)	Y697C	probably benign	Het
Prkcd	T	C	14: 30,324,019 (GRCm39)	T435A	probably benign	Het
Rnf19b	C	A	4: 128,977,862 (GRCm39)	A693D	probably benign	Het
Scn9a	A	G	2: 66,317,754 (GRCm39)	I1578T	probably damaging	Het
Slamf9	A	G	1: 172,303,942 (GRCm39)	S96G	probably benign	Het
Slc17a8	T	C	10: 89,412,233 (GRCm39)	D584G	probably benign	Het
Slc1a7	G	A	4: 107,869,473 (GRCm39)	V513M	probably benign	Het
Slc2a7	C	A	4: 150,252,818 (GRCm39)	T486K	probably damaging	Het
Slc6a20a	G	A	9: 123,466,065 (GRCm39)	A592V	probably damaging	Het
Spz1	T	C	13: 92,711,609 (GRCm39)	D289G	probably benign	Het
Sspo	G	A	6: 48,444,683 (GRCm39)	C2226Y	possibly damaging	Het
Taf4b	T	G	18: 14,963,085 (GRCm39)	D608E	probably damaging	Het
Tagap1	A	T	17: 7,223,526 (GRCm39)	I390N	probably damaging	Het
Tcp11l2	A	G	10: 84,444,480 (GRCm39)	N430D	probably damaging	Het
Thsd7b	T	C	1: 129,688,036 (GRCm39)	L649P	probably damaging	Het
Tmprss15	C	T	16: 78,757,473 (GRCm39)	G956R	probably damaging	Het
Tnc	G	T	4: 63,935,716 (GRCm39)	Q407K	probably benign	Het
Tti1	C	A	2: 157,849,509 (GRCm39)	E577*	probably null	Het
Vmn2r79	A	T	7: 86,686,862 (GRCm39)	M748L	probably benign	Het
Zbtb37	C	T	1: 160,847,654 (GRCm39)	R451Q	probably damaging	Het
Zfp1002	T	C	2: 150,096,455 (GRCm39)	K325E	probably benign	Het
Zfp566	A	T	7: 29,777,785 (GRCm39)	I132N	probably benign	Het
Zik1	C	T	7: 10,223,930 (GRCm39)	G389E	probably damaging	Het
Zzef1	A	T	11: 72,799,295 (GRCm39)	K2382*	probably null	Het

Other mutations in Rfx1

Allele	Source	Chr	Coord	Type	Predicted Effect	PPH Score
IGL01612:Rfx1	APN	8	84,819,601 (GRCm39)	critical splice acceptor site	probably null
IGL01779:Rfx1	APN	8	84,819,291 (GRCm39)	splice site	probably benign
IGL02505:Rfx1	APN	8	84,822,438 (GRCm39)	missense	possibly damaging	0.79
IGL02741:Rfx1	APN	8	84,822,471 (GRCm39)	missense	possibly damaging	0.94
R1565:Rfx1	UTSW	8	84,800,575 (GRCm39)	missense	probably benign
R1793:Rfx1	UTSW	8	84,793,050 (GRCm39)	unclassified	probably benign
R1808:Rfx1	UTSW	8	84,821,677 (GRCm39)	missense	probably damaging	1.00
R1971:Rfx1	UTSW	8	84,822,126 (GRCm39)	missense	probably damaging	1.00
R4542:Rfx1	UTSW	8	84,816,866 (GRCm39)	missense	probably damaging	1.00
R4690:Rfx1	UTSW	8	84,809,374 (GRCm39)	missense	possibly damaging	0.50
R4995:Rfx1	UTSW	8	84,806,743 (GRCm39)	splice site	probably null
R5163:Rfx1	UTSW	8	84,819,840 (GRCm39)	missense	probably damaging	0.98
R5212:Rfx1	UTSW	8	84,793,221 (GRCm39)	unclassified	probably benign
R5227:Rfx1	UTSW	8	84,800,687 (GRCm39)	missense	probably damaging	0.99
R5401:Rfx1	UTSW	8	84,793,005 (GRCm39)	splice site	probably null
R5431:Rfx1	UTSW	8	84,809,349 (GRCm39)	nonsense	probably null
R5584:Rfx1	UTSW	8	84,814,706 (GRCm39)	splice site	probably null
R5693:Rfx1	UTSW	8	84,800,533 (GRCm39)	missense	unknown
R6210:Rfx1	UTSW	8	84,819,647 (GRCm39)	missense	probably damaging	1.00
R6715:Rfx1	UTSW	8	84,822,444 (GRCm39)	missense	possibly damaging	0.49
R6920:Rfx1	UTSW	8	84,822,117 (GRCm39)	missense	probably damaging	1.00
R7131:Rfx1	UTSW	8	84,821,708 (GRCm39)	missense	probably damaging	0.96
R7155:Rfx1	UTSW	8	84,821,455 (GRCm39)	missense	probably damaging	0.99
R7336:Rfx1	UTSW	8	84,800,385 (GRCm39)	start gained	probably benign
R7467:Rfx1	UTSW	8	84,800,542 (GRCm39)	missense	possibly damaging	0.86
R8105:Rfx1	UTSW	8	84,814,505 (GRCm39)	missense	possibly damaging	0.92
R8261:Rfx1	UTSW	8	84,819,479 (GRCm39)	missense	probably benign	0.00
R8263:Rfx1	UTSW	8	84,821,483 (GRCm39)	missense	probably damaging	1.00
R8443:Rfx1	UTSW	8	84,806,515 (GRCm39)	missense	probably benign	0.00
R8680:Rfx1	UTSW	8	84,818,084 (GRCm39)	missense	possibly damaging	0.82
R9302:Rfx1	UTSW	8	84,817,662 (GRCm39)	missense	possibly damaging	0.50
R9473:Rfx1	UTSW	8	84,819,903 (GRCm39)	missense	probably damaging	0.96
R9766:Rfx1	UTSW	8	84,814,376 (GRCm39)	missense	probably damaging	1.00
Z1177:Rfx1	UTSW	8	84,816,906 (GRCm39)	missense	probably damaging	1.00

Predicted Primers

PCR Primer
(F):5'- ACACAGTCCTATGTTACTGAGCTAC -3'
(R):5'- CCCTTTACCCAGAGATGCCTTG -3'

Sequencing Primer
(F):5'- TGAGCTACAGGCAGCCC -3'
(R):5'- ACCCAGAGATGCCTTGATTCG -3'

Posted On

2020-06-30