Incidental Mutation 'R5641:Rfx3'
ID |
440701 |
Institutional Source |
Beutler Lab
|
Gene Symbol |
Rfx3
|
Ensembl Gene |
ENSMUSG00000040929 |
Gene Name |
regulatory factor X, 3 (influences HLA class II expression) |
Synonyms |
MRFX3, C230093O12Rik |
Accession Numbers |
|
Essential gene? |
Essential
(E-score: 1.000)
|
Stock # |
R5641 (G1)
|
Quality Score |
225 |
Status
|
Not validated
|
Chromosome |
19 |
Chromosomal Location |
27739121-27988566 bp(-) (GRCm39) |
Type of Mutation |
splice site (3 bp from exon) |
DNA Base Change (assembly) |
T to C
at 27771008 bp (GRCm39)
|
Zygosity |
Heterozygous |
Amino Acid Change |
|
Ref Sequence |
ENSEMBL: ENSMUSP00000133461
(fasta)
|
Gene Model |
predicted gene model for transcript(s):
[ENSMUST00000046898]
[ENSMUST00000165566]
[ENSMUST00000165566]
[ENSMUST00000172907]
[ENSMUST00000173863]
[ENSMUST00000174850]
|
AlphaFold |
P48381 |
Predicted Effect |
probably null
Transcript: ENSMUST00000046898
|
SMART Domains |
Protein: ENSMUSP00000038760 Gene: ENSMUSG00000040929
Domain | Start | End | E-Value | Type |
Pfam:RFX1_trans_act
|
1 |
140 |
6.3e-58 |
PFAM |
Pfam:RFX_DNA_binding
|
150 |
235 |
6.9e-41 |
PFAM |
low complexity region
|
274 |
283 |
N/A |
INTRINSIC |
internal_repeat_1
|
326 |
414 |
1.39e-5 |
PROSPERO |
internal_repeat_1
|
439 |
527 |
1.39e-5 |
PROSPERO |
low complexity region
|
649 |
664 |
N/A |
INTRINSIC |
|
Predicted Effect |
probably null
Transcript: ENSMUST00000165566
|
SMART Domains |
Protein: ENSMUSP00000126313 Gene: ENSMUSG00000040929
Domain | Start | End | E-Value | Type |
Pfam:RFX1_trans_act
|
4 |
138 |
9.7e-38 |
PFAM |
Pfam:RFX_DNA_binding
|
181 |
258 |
6.2e-36 |
PFAM |
low complexity region
|
299 |
308 |
N/A |
INTRINSIC |
internal_repeat_1
|
351 |
439 |
1.82e-5 |
PROSPERO |
internal_repeat_1
|
464 |
552 |
1.82e-5 |
PROSPERO |
low complexity region
|
674 |
689 |
N/A |
INTRINSIC |
|
Predicted Effect |
probably null
Transcript: ENSMUST00000165566
|
SMART Domains |
Protein: ENSMUSP00000126313 Gene: ENSMUSG00000040929
Domain | Start | End | E-Value | Type |
Pfam:RFX1_trans_act
|
4 |
138 |
9.7e-38 |
PFAM |
Pfam:RFX_DNA_binding
|
181 |
258 |
6.2e-36 |
PFAM |
low complexity region
|
299 |
308 |
N/A |
INTRINSIC |
internal_repeat_1
|
351 |
439 |
1.82e-5 |
PROSPERO |
internal_repeat_1
|
464 |
552 |
1.82e-5 |
PROSPERO |
low complexity region
|
674 |
689 |
N/A |
INTRINSIC |
|
Predicted Effect |
noncoding transcript
Transcript: ENSMUST00000172498
|
Predicted Effect |
probably null
Transcript: ENSMUST00000172907
|
SMART Domains |
Protein: ENSMUSP00000134141 Gene: ENSMUSG00000040929
Domain | Start | End | E-Value | Type |
Pfam:RFX1_trans_act
|
1 |
140 |
9.4e-58 |
PFAM |
Pfam:RFX_DNA_binding
|
175 |
260 |
5.2e-41 |
PFAM |
low complexity region
|
299 |
308 |
N/A |
INTRINSIC |
internal_repeat_1
|
351 |
439 |
1.82e-5 |
PROSPERO |
internal_repeat_1
|
464 |
552 |
1.82e-5 |
PROSPERO |
low complexity region
|
674 |
689 |
N/A |
INTRINSIC |
|
Predicted Effect |
probably benign
Transcript: ENSMUST00000173863
|
SMART Domains |
Protein: ENSMUSP00000133367 Gene: ENSMUSG00000040929
Domain | Start | End | E-Value | Type |
Pfam:RFX1_trans_act
|
1 |
140 |
3.3e-58 |
PFAM |
Pfam:RFX_DNA_binding
|
175 |
246 |
3.7e-24 |
PFAM |
low complexity region
|
285 |
294 |
N/A |
INTRINSIC |
|
Predicted Effect |
probably null
Transcript: ENSMUST00000174850
|
SMART Domains |
Protein: ENSMUSP00000133461 Gene: ENSMUSG00000040929
Domain | Start | End | E-Value | Type |
Pfam:RFX1_trans_act
|
1 |
140 |
9.4e-58 |
PFAM |
Pfam:RFX_DNA_binding
|
175 |
260 |
5.2e-41 |
PFAM |
low complexity region
|
299 |
308 |
N/A |
INTRINSIC |
internal_repeat_1
|
351 |
439 |
1.82e-5 |
PROSPERO |
internal_repeat_1
|
464 |
552 |
1.82e-5 |
PROSPERO |
low complexity region
|
674 |
689 |
N/A |
INTRINSIC |
|
Coding Region Coverage |
- 1x: 99.3%
- 3x: 98.7%
- 10x: 97.3%
- 20x: 95.3%
|
Validation Efficiency |
|
MGI Phenotype |
FUNCTION: [Summary is not available for the mouse gene. This summary is for the human ortholog.] This gene is a member of the regulatory factor X gene family, which encodes transcription factors that contain a highly-conserved winged helix DNA binding domain. The protein encoded by this gene is structurally related to regulatory factors X1, X2, X4, and X5. It is a transcriptional activator that can bind DNA as a monomer or as a heterodimer with other RFX family members. Multiple transcript variants encoding different isoforms have been described for this gene. [provided by RefSeq, Aug 2013] PHENOTYPE: Homozygous null mice display embryonic and perinatal lethality, impaired development of cilia on the embryonic node, abnormal left-right patterning, meso- and dextrocardia, and situs inversus in surviving adults. [provided by MGI curators]
|
Allele List at MGI |
|
Other mutations in this stock |
Total: 51 list
Gene | Ref | Var | Chr/Loc | Mutation | Predicted Effect | Zygosity |
Abcc1 |
A |
T |
16: 14,289,877 (GRCm39) |
M1398L |
probably benign |
Het |
Acad12 |
A |
G |
5: 121,742,084 (GRCm39) |
|
probably benign |
Het |
Aldh1a7 |
T |
C |
19: 20,693,293 (GRCm39) |
I209V |
probably benign |
Het |
Alkal2 |
G |
A |
12: 30,937,264 (GRCm39) |
|
probably null |
Het |
Aqr |
A |
G |
2: 113,979,515 (GRCm39) |
F307L |
probably damaging |
Het |
Atp2a2 |
A |
G |
5: 122,595,639 (GRCm39) |
L932P |
probably damaging |
Het |
Atxn7 |
T |
C |
14: 14,013,638 (GRCm38) |
M113T |
probably damaging |
Het |
Blzf1 |
T |
A |
1: 164,134,038 (GRCm39) |
M4L |
probably benign |
Het |
Brca2 |
C |
A |
5: 150,480,364 (GRCm39) |
S2711R |
probably damaging |
Het |
Bzw1 |
A |
T |
1: 58,436,883 (GRCm39) |
Q70L |
probably damaging |
Het |
Cd34 |
T |
A |
1: 194,630,276 (GRCm39) |
I70N |
probably benign |
Het |
Chac1 |
A |
G |
2: 119,181,999 (GRCm39) |
Y39C |
probably damaging |
Het |
Col6a2 |
G |
C |
10: 76,449,112 (GRCm39) |
P275A |
probably damaging |
Het |
Crb1 |
T |
A |
1: 139,176,627 (GRCm39) |
N452I |
probably damaging |
Het |
Ctrc |
T |
C |
4: 141,566,094 (GRCm39) |
N188S |
probably damaging |
Het |
Dnah7b |
G |
A |
1: 46,307,924 (GRCm39) |
|
probably null |
Het |
Etl4 |
GGGGAAGAACCGG |
GGG |
2: 20,811,273 (GRCm39) |
|
probably null |
Het |
Exoc6 |
T |
A |
19: 37,576,081 (GRCm39) |
|
probably null |
Het |
Gm5616 |
T |
A |
9: 48,361,716 (GRCm39) |
|
noncoding transcript |
Het |
Gm7535 |
T |
C |
17: 18,131,788 (GRCm39) |
|
probably benign |
Het |
Hnrnpr |
T |
C |
4: 136,059,798 (GRCm39) |
S200P |
probably damaging |
Het |
Ighg2b |
T |
C |
12: 113,270,767 (GRCm39) |
N121S |
unknown |
Het |
Il21 |
T |
A |
3: 37,281,917 (GRCm39) |
K76* |
probably null |
Het |
Jup |
T |
A |
11: 100,267,632 (GRCm39) |
T564S |
possibly damaging |
Het |
Kcns2 |
G |
C |
15: 34,839,199 (GRCm39) |
R187S |
possibly damaging |
Het |
Klhl18 |
G |
A |
9: 110,275,896 (GRCm39) |
T84M |
probably damaging |
Het |
Mtor |
T |
A |
4: 148,630,882 (GRCm39) |
L2280M |
probably damaging |
Het |
Ncoa6 |
A |
G |
2: 155,263,756 (GRCm39) |
I226T |
probably benign |
Het |
Nipbl |
A |
T |
15: 8,396,196 (GRCm39) |
Y126N |
possibly damaging |
Het |
Nlrp4a |
T |
A |
7: 26,149,589 (GRCm39) |
C399S |
probably damaging |
Het |
Nphp3 |
A |
G |
9: 103,913,352 (GRCm39) |
K54E |
probably damaging |
Het |
Nsun2 |
T |
A |
13: 69,771,368 (GRCm39) |
V326E |
probably benign |
Het |
Oosp3 |
T |
C |
19: 11,674,537 (GRCm39) |
|
probably null |
Het |
Or4k15b |
A |
G |
14: 50,272,746 (GRCm39) |
I38T |
probably benign |
Het |
Pcdhga9 |
T |
C |
18: 37,871,301 (GRCm39) |
S377P |
probably damaging |
Het |
Pdlim3 |
A |
G |
8: 46,368,300 (GRCm39) |
|
probably null |
Het |
Pla2r1 |
A |
T |
2: 60,345,328 (GRCm39) |
W343R |
probably damaging |
Het |
Prox2 |
A |
G |
12: 85,134,721 (GRCm39) |
V520A |
probably benign |
Het |
Rif1 |
A |
C |
2: 52,011,170 (GRCm39) |
R2412S |
possibly damaging |
Het |
Rreb1 |
T |
C |
13: 38,131,397 (GRCm39) |
L1517P |
probably benign |
Het |
Rxfp1 |
T |
C |
3: 79,594,199 (GRCm39) |
N65S |
probably damaging |
Het |
Sbf2 |
T |
C |
7: 110,038,108 (GRCm39) |
E399G |
probably damaging |
Het |
Slc36a4 |
A |
C |
9: 15,640,098 (GRCm39) |
|
probably null |
Het |
Slco1a1 |
A |
T |
6: 141,885,695 (GRCm39) |
M110K |
probably damaging |
Het |
Stat5a |
T |
A |
11: 100,767,634 (GRCm39) |
C401S |
probably benign |
Het |
Ticam1 |
TCACACA |
TCACA |
17: 56,577,629 (GRCm39) |
|
probably null |
Het |
Tmem150c |
T |
C |
5: 100,231,523 (GRCm39) |
T151A |
probably damaging |
Het |
Ube4a |
A |
T |
9: 44,862,179 (GRCm39) |
M173K |
probably damaging |
Het |
Vmn1r188 |
A |
T |
13: 22,272,342 (GRCm39) |
S99C |
probably damaging |
Het |
Vmn2r70 |
C |
T |
7: 85,208,572 (GRCm39) |
C635Y |
probably damaging |
Het |
Zfp644 |
T |
C |
5: 106,767,461 (GRCm39) |
K24E |
probably damaging |
Het |
|
Other mutations in Rfx3 |
Allele | Source | Chr | Coord | Type | Predicted Effect | PPH Score |
IGL00548:Rfx3
|
APN |
19 |
27,783,586 (GRCm39) |
critical splice donor site |
probably null |
|
IGL00588:Rfx3
|
APN |
19 |
27,803,476 (GRCm39) |
nonsense |
probably null |
|
IGL01408:Rfx3
|
APN |
19 |
27,746,050 (GRCm39) |
missense |
probably benign |
0.04 |
IGL01937:Rfx3
|
APN |
19 |
27,808,129 (GRCm39) |
missense |
probably damaging |
1.00 |
IGL02668:Rfx3
|
APN |
19 |
27,793,014 (GRCm39) |
splice site |
probably benign |
|
IGL02679:Rfx3
|
APN |
19 |
27,827,137 (GRCm39) |
missense |
possibly damaging |
0.95 |
R0267:Rfx3
|
UTSW |
19 |
27,771,188 (GRCm39) |
missense |
probably benign |
0.00 |
R0336:Rfx3
|
UTSW |
19 |
27,783,662 (GRCm39) |
missense |
probably benign |
0.00 |
R0838:Rfx3
|
UTSW |
19 |
27,827,367 (GRCm39) |
missense |
possibly damaging |
0.92 |
R0967:Rfx3
|
UTSW |
19 |
27,783,751 (GRCm39) |
splice site |
probably benign |
|
R1102:Rfx3
|
UTSW |
19 |
27,845,000 (GRCm39) |
missense |
possibly damaging |
0.51 |
R1507:Rfx3
|
UTSW |
19 |
27,745,913 (GRCm39) |
missense |
probably benign |
0.00 |
R2172:Rfx3
|
UTSW |
19 |
27,792,894 (GRCm39) |
nonsense |
probably null |
|
R2844:Rfx3
|
UTSW |
19 |
27,784,186 (GRCm39) |
splice site |
probably benign |
|
R2960:Rfx3
|
UTSW |
19 |
27,878,211 (GRCm39) |
nonsense |
probably null |
|
R4291:Rfx3
|
UTSW |
19 |
27,777,632 (GRCm39) |
missense |
probably damaging |
1.00 |
R4952:Rfx3
|
UTSW |
19 |
27,808,072 (GRCm39) |
missense |
probably damaging |
1.00 |
R5198:Rfx3
|
UTSW |
19 |
27,808,176 (GRCm39) |
missense |
probably damaging |
1.00 |
R5451:Rfx3
|
UTSW |
19 |
27,827,359 (GRCm39) |
missense |
probably damaging |
1.00 |
R5590:Rfx3
|
UTSW |
19 |
27,779,780 (GRCm39) |
critical splice donor site |
probably null |
|
R5663:Rfx3
|
UTSW |
19 |
27,771,017 (GRCm39) |
missense |
probably damaging |
1.00 |
R5899:Rfx3
|
UTSW |
19 |
27,808,165 (GRCm39) |
missense |
probably damaging |
1.00 |
R6049:Rfx3
|
UTSW |
19 |
27,779,795 (GRCm39) |
missense |
probably damaging |
0.99 |
R6368:Rfx3
|
UTSW |
19 |
27,746,009 (GRCm39) |
missense |
possibly damaging |
0.92 |
R7131:Rfx3
|
UTSW |
19 |
27,746,028 (GRCm39) |
nonsense |
probably null |
|
R7273:Rfx3
|
UTSW |
19 |
27,779,858 (GRCm39) |
missense |
probably damaging |
1.00 |
R7593:Rfx3
|
UTSW |
19 |
27,827,139 (GRCm39) |
missense |
probably benign |
0.00 |
R7814:Rfx3
|
UTSW |
19 |
27,803,470 (GRCm39) |
missense |
probably benign |
0.01 |
R7815:Rfx3
|
UTSW |
19 |
27,803,448 (GRCm39) |
missense |
probably benign |
0.00 |
R8458:Rfx3
|
UTSW |
19 |
27,771,072 (GRCm39) |
missense |
possibly damaging |
0.71 |
R8995:Rfx3
|
UTSW |
19 |
27,783,725 (GRCm39) |
missense |
probably benign |
0.14 |
R9147:Rfx3
|
UTSW |
19 |
27,878,207 (GRCm39) |
missense |
possibly damaging |
0.84 |
R9148:Rfx3
|
UTSW |
19 |
27,878,207 (GRCm39) |
missense |
possibly damaging |
0.84 |
R9310:Rfx3
|
UTSW |
19 |
27,827,329 (GRCm39) |
missense |
probably benign |
0.00 |
Z1088:Rfx3
|
UTSW |
19 |
27,814,850 (GRCm39) |
missense |
probably damaging |
1.00 |
|
Predicted Primers |
PCR Primer
(F):5'- ATAACTCGCGGAAAACTTCTCAGC -3'
(R):5'- GCCAGTGTGATGACAACATG -3'
Sequencing Primer
(F):5'- CGCGGAAAACTTCTCAGCTTTGAG -3'
(R):5'- CCAGTGTGATGACAACATGGTTCAG -3'
|
Posted On |
2016-11-08 |