Incidental Mutation 'R8713:Scube1'
| ID |
669734 |
| Institutional Source |
Beutler Lab
|
| Gene Symbol |
Scube1
|
| Ensembl Gene |
ENSMUSG00000016763 |
| Gene Name |
signal peptide, CUB domain, EGF-like 1 |
| Synonyms |
7330410C13Rik, A630023E24Rik |
| MMRRC Submission |
068567-MU
|
| Accession Numbers |
|
| Essential gene? |
Probably non essential
(E-score: 0.135)
|
| Stock # |
R8713 (G1)
|
| Quality Score |
225.009 |
|
Status
|
Validated
|
| Chromosome |
15 |
| Chromosomal Location |
83489200-83609222 bp(-) (GRCm39) |
| Type of Mutation |
missense |
| DNA Base Change (assembly) |
G to T
at 83494471 bp (GRCm39)
|
| Zygosity |
Heterozygous |
| Amino Acid Change |
Alanine to Glutamic Acid
at position 852
(A852E)
|
| Ref Sequence |
ENSEMBL: ENSMUSP00000016907
(fasta)
|
| Gene Model |
predicted gene model for transcript(s):
[ENSMUST00000016907]
[ENSMUST00000043634]
[ENSMUST00000076060]
[ENSMUST00000171496]
|
| AlphaFold |
Q6NZL8 |
| Predicted Effect |
possibly damaging
Transcript: ENSMUST00000016907
AA Change: A852E
PolyPhen 2
Score 0.580 (Sensitivity: 0.88; Specificity: 0.91)
|
| SMART Domains |
Protein: ENSMUSP00000016907
Gene: ENSMUSG00000016763
AA Change: A852E
| Domain | Start | End | E-Value | Type |
|---|
|
signal peptide
|
1 |
20 |
N/A |
INTRINSIC |
|
EGF_CA
|
33 |
73 |
1.5e-9 |
SMART |
|
EGF_CA
|
74 |
116 |
7.29e-8 |
SMART |
|
EGF_CA
|
117 |
157 |
1.4e-9 |
SMART |
|
EGF
|
165 |
203 |
1.43e-1 |
SMART |
|
EGF
|
205 |
242 |
1.09e1 |
SMART |
|
EGF
|
274 |
311 |
1.69e-3 |
SMART |
|
EGF_CA
|
312 |
352 |
2.13e-9 |
SMART |
|
EGF_CA
|
353 |
391 |
4.7e-11 |
SMART |
|
EGF_CA
|
392 |
432 |
3.91e-8 |
SMART |
|
low complexity region
|
560 |
573 |
N/A |
INTRINSIC |
|
Pfam:GCC2_GCC3
|
666 |
713 |
4.5e-13 |
PFAM |
|
EGF_like
|
766 |
804 |
6.81e1 |
SMART |
|
CUB
|
828 |
940 |
1.51e-19 |
SMART |
|
| Predicted Effect |
possibly damaging
Transcript: ENSMUST00000043634
AA Change: A741E
PolyPhen 2
Score 0.580 (Sensitivity: 0.88; Specificity: 0.91)
|
| SMART Domains |
Protein: ENSMUSP00000044835
Gene: ENSMUSG00000016763
AA Change: A741E
| Domain | Start | End | E-Value | Type |
|---|
|
signal peptide
|
1 |
20 |
N/A |
INTRINSIC |
|
EGF_CA
|
33 |
73 |
1.5e-9 |
SMART |
|
EGF_CA
|
74 |
116 |
7.29e-8 |
SMART |
|
EGF_CA
|
117 |
157 |
1.4e-9 |
SMART |
|
EGF
|
163 |
200 |
1.69e-3 |
SMART |
|
EGF_CA
|
201 |
241 |
2.13e-9 |
SMART |
|
EGF_CA
|
242 |
280 |
4.7e-11 |
SMART |
|
EGF_CA
|
281 |
321 |
3.91e-8 |
SMART |
|
low complexity region
|
449 |
462 |
N/A |
INTRINSIC |
|
Pfam:GCC2_GCC3
|
555 |
602 |
3.2e-11 |
PFAM |
|
EGF_like
|
655 |
693 |
6.81e1 |
SMART |
|
CUB
|
717 |
829 |
1.51e-19 |
SMART |
|
| Predicted Effect |
possibly damaging
Transcript: ENSMUST00000076060
AA Change: A822E
PolyPhen 2
Score 0.673 (Sensitivity: 0.86; Specificity: 0.92)
|
| SMART Domains |
Protein: ENSMUSP00000075434
Gene: ENSMUSG00000016763
AA Change: A822E
| Domain | Start | End | E-Value | Type |
|---|
|
signal peptide
|
1 |
20 |
N/A |
INTRINSIC |
|
EGF_CA
|
33 |
73 |
1.5e-9 |
SMART |
|
EGF_CA
|
74 |
116 |
7.29e-8 |
SMART |
|
EGF_CA
|
117 |
157 |
1.4e-9 |
SMART |
|
EGF
|
165 |
203 |
1.43e-1 |
SMART |
|
EGF
|
205 |
242 |
1.09e1 |
SMART |
|
EGF
|
244 |
281 |
1.69e-3 |
SMART |
|
EGF_CA
|
282 |
322 |
2.13e-9 |
SMART |
|
EGF_CA
|
323 |
361 |
4.7e-11 |
SMART |
|
EGF_CA
|
362 |
402 |
3.91e-8 |
SMART |
|
low complexity region
|
530 |
543 |
N/A |
INTRINSIC |
|
Pfam:GCC2_GCC3
|
636 |
683 |
1.3e-11 |
PFAM |
|
EGF_like
|
736 |
774 |
6.81e1 |
SMART |
|
CUB
|
798 |
910 |
1.51e-19 |
SMART |
|
| Predicted Effect |
possibly damaging
Transcript: ENSMUST00000171496
AA Change: A822E
PolyPhen 2
Score 0.473 (Sensitivity: 0.89; Specificity: 0.90)
|
| SMART Domains |
Protein: ENSMUSP00000130131
Gene: ENSMUSG00000016763
AA Change: A822E
| Domain | Start | End | E-Value | Type |
|---|
|
signal peptide
|
1 |
20 |
N/A |
INTRINSIC |
|
EGF_CA
|
33 |
73 |
1.5e-9 |
SMART |
|
EGF_CA
|
74 |
116 |
7.29e-8 |
SMART |
|
EGF_CA
|
117 |
157 |
1.4e-9 |
SMART |
|
EGF
|
165 |
203 |
1.43e-1 |
SMART |
|
EGF
|
205 |
242 |
1.09e1 |
SMART |
|
EGF
|
244 |
281 |
1.69e-3 |
SMART |
|
EGF_CA
|
282 |
322 |
2.13e-9 |
SMART |
|
EGF_CA
|
323 |
361 |
4.7e-11 |
SMART |
|
EGF_CA
|
362 |
402 |
3.91e-8 |
SMART |
|
low complexity region
|
530 |
543 |
N/A |
INTRINSIC |
|
Pfam:GCC2_GCC3
|
636 |
683 |
1.7e-11 |
PFAM |
|
EGF_like
|
736 |
774 |
6.81e1 |
SMART |
|
CUB
|
798 |
910 |
1.51e-19 |
SMART |
|
| Meta Mutation Damage Score |
0.1712 |
| Coding Region Coverage |
- 1x: 100.0%
- 3x: 100.0%
- 10x: 99.8%
- 20x: 99.3%
|
| Validation Efficiency |
100% (52/52) |
| MGI Phenotype |
FUNCTION: [Summary is not available for the mouse gene. This summary is for the human ortholog.] This gene encodes a cell surface glycoprotein that is a member of the SCUBE (signal peptide, CUB domain, EGF (epidermal growth factor)-like protein) family. Family members have an amino-terminal signal peptide, nine copies of EGF-like repeats and a CUB domain at the carboxyl terminus. This protein is expressed in platelets and endothelial cells and may play an important role in vascular biology. [provided by RefSeq, Oct 2011]
PHENOTYPE: A fraction of homozygotes die neonatally with acrania and loss of brain tissue. Early skull bone defects include lack of the interparietal and supraoccipital bones and cranial vault. Affected mutant embryos show exencephaly, a thick-walled forebrain neuroepithelium and hyperplastic cranial ganglia. [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 |
|---|
| Ablim2 |
C |
T |
5: 36,030,518 (GRCm39) |
A581V |
possibly damaging |
Het |
| Adam18 |
T |
A |
8: 25,142,189 (GRCm39) |
M196L |
probably benign |
Het |
| Ankrd10 |
A |
G |
8: 11,678,491 (GRCm39) |
S134P |
probably damaging |
Het |
| Ano8 |
C |
T |
8: 71,937,721 (GRCm39) |
G47D |
probably damaging |
Het |
| Arl6ip4 |
T |
C |
5: 124,254,825 (GRCm39) |
V4A |
unknown |
Het |
| Cabp4 |
C |
T |
19: 4,186,159 (GRCm39) |
M247I |
probably benign |
Het |
| Ccdc30 |
A |
T |
4: 119,261,404 (GRCm39) |
L11Q |
probably damaging |
Het |
| Cdkl4 |
A |
G |
17: 80,841,292 (GRCm39) |
S288P |
possibly damaging |
Het |
| Celsr3 |
A |
G |
9: 108,707,062 (GRCm39) |
I1182V |
probably benign |
Het |
| Dnah17 |
T |
C |
11: 117,979,028 (GRCm39) |
D1788G |
probably damaging |
Het |
| Dsp |
A |
G |
13: 38,352,701 (GRCm39) |
D193G |
probably damaging |
Het |
| Dym |
T |
G |
18: 75,189,809 (GRCm39) |
Y132* |
probably null |
Het |
| Dync2h1 |
G |
A |
9: 7,141,008 (GRCm39) |
Q1340* |
probably null |
Het |
| Elmo1 |
T |
C |
13: 20,458,791 (GRCm39) |
|
probably benign |
Het |
| Fbxw15 |
A |
C |
9: 109,384,667 (GRCm39) |
F378V |
possibly damaging |
Het |
| Fsip2 |
G |
A |
2: 82,811,453 (GRCm39) |
G2591R |
probably damaging |
Het |
| Gps2 |
C |
A |
11: 69,806,180 (GRCm39) |
D148E |
probably benign |
Het |
| Iars2 |
T |
C |
1: 185,023,615 (GRCm39) |
D772G |
possibly damaging |
Het |
| Ifit1 |
T |
A |
19: 34,625,038 (GRCm39) |
L58Q |
probably benign |
Het |
| Kctd4 |
A |
T |
14: 76,200,366 (GRCm39) |
Q112H |
probably benign |
Het |
| Letm1 |
A |
G |
5: 33,919,849 (GRCm39) |
L230P |
probably damaging |
Het |
| Lrch4 |
G |
T |
5: 137,638,125 (GRCm39) |
E136* |
probably null |
Het |
| Macc1 |
T |
C |
12: 119,407,261 (GRCm39) |
|
probably benign |
Het |
| Macrod1 |
T |
C |
19: 7,034,494 (GRCm39) |
L79P |
probably benign |
Het |
| Map2 |
T |
A |
1: 66,453,781 (GRCm39) |
N890K |
probably damaging |
Het |
| Mctp1 |
G |
A |
13: 76,789,922 (GRCm39) |
S270N |
probably benign |
Het |
| Mrpl44 |
C |
T |
1: 79,755,708 (GRCm39) |
R105C |
probably damaging |
Het |
| Mtg1 |
T |
A |
7: 139,717,688 (GRCm39) |
|
probably null |
Het |
| Mtg1 |
T |
C |
7: 139,720,136 (GRCm39) |
F68L |
probably benign |
Het |
| Nfil3 |
A |
G |
13: 53,122,047 (GRCm39) |
S286P |
possibly damaging |
Het |
| Nutm1 |
A |
G |
2: 112,081,667 (GRCm39) |
V332A |
possibly damaging |
Het |
| Obscn |
T |
A |
11: 59,026,792 (GRCm39) |
Q137L |
probably benign |
Het |
| Pcnx2 |
T |
G |
8: 126,545,525 (GRCm39) |
E1162A |
probably damaging |
Het |
| Pgr |
A |
G |
9: 8,900,818 (GRCm39) |
D117G |
possibly damaging |
Het |
| Plce1 |
T |
C |
19: 38,513,345 (GRCm39) |
C215R |
probably benign |
Het |
| Rrm1 |
T |
G |
7: 102,109,558 (GRCm39) |
Y461D |
probably damaging |
Het |
| Sbk3 |
C |
T |
7: 4,972,991 (GRCm39) |
V60I |
possibly damaging |
Het |
| Sec24d |
T |
A |
3: 123,137,541 (GRCm39) |
I561N |
probably damaging |
Het |
| Slc16a4 |
T |
C |
3: 107,218,901 (GRCm39) |
*501Q |
probably null |
Het |
| Slc6a19 |
C |
A |
13: 73,848,740 (GRCm39) |
V5L |
probably benign |
Het |
| Spryd3 |
A |
G |
15: 102,041,920 (GRCm39) |
I34T |
possibly damaging |
Het |
| Syne1 |
A |
G |
10: 5,266,040 (GRCm39) |
L2191P |
probably damaging |
Het |
| Tbrg1 |
A |
G |
9: 37,563,955 (GRCm39) |
C227R |
probably damaging |
Het |
| Tdrd6 |
A |
G |
17: 43,935,910 (GRCm39) |
S1713P |
probably benign |
Het |
| Thap12 |
C |
T |
7: 98,356,283 (GRCm39) |
L57F |
probably benign |
Het |
| Top1 |
G |
A |
2: 160,559,360 (GRCm39) |
V628I |
probably damaging |
Het |
| Trim67 |
A |
G |
8: 125,547,074 (GRCm39) |
M495V |
probably null |
Het |
| Trio |
A |
C |
15: 27,744,037 (GRCm39) |
|
probably benign |
Het |
| Vmn2r23 |
A |
T |
6: 123,679,991 (GRCm39) |
Y71F |
|
Het |
| Ywhah |
A |
G |
5: 33,184,535 (GRCm39) |
N246S |
probably benign |
Het |
| Zcwpw1 |
T |
C |
5: 137,797,794 (GRCm39) |
I125T |
probably benign |
Het |
|
| Other mutations in Scube1 |
| Allele | Source | Chr | Coord | Type | Predicted Effect | PPH Score |
|---|
|
IGL00903:Scube1
|
APN |
15 |
83,587,702 (GRCm39) |
missense |
probably damaging |
0.98 |
|
IGL01152:Scube1
|
APN |
15 |
83,497,771 (GRCm39) |
missense |
probably damaging |
1.00 |
|
IGL01388:Scube1
|
APN |
15 |
83,504,332 (GRCm39) |
missense |
probably benign |
0.00 |
|
IGL01589:Scube1
|
APN |
15 |
83,496,754 (GRCm39) |
missense |
probably damaging |
1.00 |
|
IGL02208:Scube1
|
APN |
15 |
83,587,741 (GRCm39) |
missense |
probably damaging |
1.00 |
|
IGL02305:Scube1
|
APN |
15 |
83,491,591 (GRCm39) |
missense |
probably damaging |
1.00 |
|
IGL02728:Scube1
|
APN |
15 |
83,543,217 (GRCm39) |
splice site |
probably benign |
|
|
IGL02737:Scube1
|
APN |
15 |
83,606,044 (GRCm39) |
splice site |
probably benign |
|
|
IGL03326:Scube1
|
APN |
15 |
83,491,617 (GRCm39) |
missense |
probably damaging |
1.00 |
|
R0055:Scube1
|
UTSW |
15 |
83,518,937 (GRCm39) |
missense |
probably damaging |
1.00 |
|
R0055:Scube1
|
UTSW |
15 |
83,518,937 (GRCm39) |
missense |
probably damaging |
1.00 |
|
R0126:Scube1
|
UTSW |
15 |
83,505,264 (GRCm39) |
missense |
probably damaging |
1.00 |
|
R0792:Scube1
|
UTSW |
15 |
83,512,277 (GRCm39) |
critical splice acceptor site |
probably null |
|
|
R1438:Scube1
|
UTSW |
15 |
83,499,227 (GRCm39) |
missense |
possibly damaging |
0.93 |
|
R1522:Scube1
|
UTSW |
15 |
83,512,277 (GRCm39) |
critical splice acceptor site |
probably null |
|
|
R1735:Scube1
|
UTSW |
15 |
83,491,638 (GRCm39) |
missense |
probably damaging |
1.00 |
|
R1766:Scube1
|
UTSW |
15 |
83,606,146 (GRCm39) |
missense |
probably damaging |
1.00 |
|
R1778:Scube1
|
UTSW |
15 |
83,494,405 (GRCm39) |
missense |
probably damaging |
1.00 |
|
R2975:Scube1
|
UTSW |
15 |
83,543,299 (GRCm39) |
missense |
probably damaging |
0.99 |
|
R4080:Scube1
|
UTSW |
15 |
83,492,948 (GRCm39) |
missense |
probably damaging |
1.00 |
|
R4434:Scube1
|
UTSW |
15 |
83,606,125 (GRCm39) |
missense |
probably damaging |
1.00 |
|
R5585:Scube1
|
UTSW |
15 |
83,561,124 (GRCm39) |
missense |
probably damaging |
1.00 |
|
R5857:Scube1
|
UTSW |
15 |
83,491,461 (GRCm39) |
unclassified |
probably benign |
|
|
R5977:Scube1
|
UTSW |
15 |
83,513,689 (GRCm39) |
missense |
probably damaging |
1.00 |
|
R6054:Scube1
|
UTSW |
15 |
83,535,877 (GRCm39) |
missense |
probably benign |
0.43 |
|
R6461:Scube1
|
UTSW |
15 |
83,496,628 (GRCm39) |
missense |
probably damaging |
1.00 |
|
R6956:Scube1
|
UTSW |
15 |
83,606,077 (GRCm39) |
missense |
probably damaging |
1.00 |
|
R6959:Scube1
|
UTSW |
15 |
83,513,636 (GRCm39) |
missense |
probably benign |
0.42 |
|
R7124:Scube1
|
UTSW |
15 |
83,513,712 (GRCm39) |
splice site |
probably null |
|
|
R7267:Scube1
|
UTSW |
15 |
83,505,266 (GRCm39) |
missense |
probably damaging |
1.00 |
|
R7404:Scube1
|
UTSW |
15 |
83,499,211 (GRCm39) |
missense |
probably damaging |
0.98 |
|
R7584:Scube1
|
UTSW |
15 |
83,606,088 (GRCm39) |
nonsense |
probably null |
|
|
R7585:Scube1
|
UTSW |
15 |
83,522,988 (GRCm39) |
missense |
possibly damaging |
0.83 |
|
R7599:Scube1
|
UTSW |
15 |
83,497,653 (GRCm39) |
missense |
probably damaging |
1.00 |
|
R8055:Scube1
|
UTSW |
15 |
83,543,226 (GRCm39) |
critical splice donor site |
probably null |
|
|
R8098:Scube1
|
UTSW |
15 |
83,543,289 (GRCm39) |
missense |
probably damaging |
1.00 |
|
R8192:Scube1
|
UTSW |
15 |
83,513,583 (GRCm39) |
critical splice donor site |
probably null |
|
|
R8394:Scube1
|
UTSW |
15 |
83,492,492 (GRCm39) |
missense |
probably damaging |
1.00 |
|
R8441:Scube1
|
UTSW |
15 |
83,494,423 (GRCm39) |
missense |
probably damaging |
0.99 |
|
R8844:Scube1
|
UTSW |
15 |
83,561,164 (GRCm39) |
missense |
probably damaging |
1.00 |
|
R9090:Scube1
|
UTSW |
15 |
83,494,394 (GRCm39) |
missense |
probably damaging |
1.00 |
|
R9169:Scube1
|
UTSW |
15 |
83,543,298 (GRCm39) |
missense |
possibly damaging |
0.88 |
|
R9271:Scube1
|
UTSW |
15 |
83,494,394 (GRCm39) |
missense |
probably damaging |
1.00 |
|
R9334:Scube1
|
UTSW |
15 |
83,512,264 (GRCm39) |
missense |
possibly damaging |
0.72 |
|
R9363:Scube1
|
UTSW |
15 |
83,499,080 (GRCm39) |
nonsense |
probably null |
|
|
R9534:Scube1
|
UTSW |
15 |
83,606,102 (GRCm39) |
missense |
probably damaging |
1.00 |
|
R9569:Scube1
|
UTSW |
15 |
83,513,605 (GRCm39) |
missense |
probably damaging |
1.00 |
|
R9574:Scube1
|
UTSW |
15 |
83,501,000 (GRCm39) |
missense |
|
|
|
R9759:Scube1
|
UTSW |
15 |
83,492,465 (GRCm39) |
missense |
probably benign |
0.02 |
|
R9788:Scube1
|
UTSW |
15 |
83,535,901 (GRCm39) |
missense |
possibly damaging |
0.73 |
|
X0022:Scube1
|
UTSW |
15 |
83,518,870 (GRCm39) |
critical splice donor site |
probably null |
|
|
Z1177:Scube1
|
UTSW |
15 |
83,496,617 (GRCm39) |
missense |
probably damaging |
0.99 |
|
| Predicted Primers |
PCR Primer
(F):5'- TATCCTACCTCGTGGGGACTTC -3'
(R):5'- TAGCACGAGGCCTCAATAGC -3'
Sequencing Primer
(F):5'- GGAGTCACCCACTTTCTGAG -3'
(R):5'- AGGCCTCAATAGCTGGCAC -3'
|
| Posted On |
2021-04-30 |
Incidental Mutation