Incidental Mutation 'R7210:Sycp1'
| ID |
560984 |
| Institutional Source |
Beutler Lab
|
| Gene Symbol |
Sycp1
|
| Ensembl Gene |
ENSMUSG00000027855 |
| Gene Name |
synaptonemal complex protein 1 |
| Synonyms |
SCP1 |
| MMRRC Submission |
045239-MU
|
| Accession Numbers |
|
| Essential gene? |
Possibly non essential
(E-score: 0.468)
|
| Stock # |
R7210 (G1)
|
| Quality Score |
225.009 |
|
Status
|
Validated
|
| Chromosome |
3 |
| Chromosomal Location |
102818499-102936100 bp(-) (GRCm38) |
| Type of Mutation |
missense |
| DNA Base Change (assembly) |
T to C
at 102853492 bp (GRCm38)
|
| Zygosity |
Heterozygous |
| Amino Acid Change |
Lysine to Glutamic Acid
at position 702
(K702E)
|
| Ref Sequence |
ENSEMBL: ENSMUSP00000029448
(fasta)
|
| Gene Model |
predicted gene model for transcript(s):
[ENSMUST00000029448]
[ENSMUST00000196988]
|
| AlphaFold |
Q62209 |
| Predicted Effect |
probably damaging
Transcript: ENSMUST00000029448
AA Change: K702E
PolyPhen 2
Score 1.000 (Sensitivity: 0.00; Specificity: 1.00)
|
| SMART Domains |
Protein: ENSMUSP00000029448
Gene: ENSMUSG00000027855
AA Change: K702E
| Domain | Start | End | E-Value | Type |
|---|
|
Pfam:SCP-1
|
28 |
809 |
N/A |
PFAM |
|
| Predicted Effect |
probably damaging
Transcript: ENSMUST00000196988
AA Change: K702E
PolyPhen 2
Score 1.000 (Sensitivity: 0.00; Specificity: 1.00)
|
| SMART Domains |
Protein: ENSMUSP00000143651
Gene: ENSMUSG00000027855
AA Change: K702E
| Domain | Start | End | E-Value | Type |
|---|
|
Pfam:SCP-1
|
28 |
809 |
N/A |
PFAM |
|
| Coding Region Coverage |
- 1x: 100.0%
- 3x: 99.9%
- 10x: 99.7%
- 20x: 98.9%
|
| Validation Efficiency |
100% (60/60) |
| MGI Phenotype |
PHENOTYPE: Homozygous null mice display male and female infertility, azoospermia, small ovary, small testis and seminiferous tubules, absent ovarian follicles, and failure of synapse formation during meiosis. [provided by MGI curators]
|
| Allele List at MGI |
|
| Other mutations in this stock |
Total: 59 list
| Gene | Ref | Var | Chr/Loc | Mutation | Predicted Effect | Zygosity |
|---|
| Abcc3 |
G |
A |
11: 94,373,941 (GRCm38) |
P194S |
probably benign |
Het |
| Ackr2 |
C |
T |
9: 121,908,877 (GRCm38) |
A106V |
possibly damaging |
Het |
| Alg3 |
G |
A |
16: 20,605,894 (GRCm38) |
P112L |
unknown |
Het |
| Areg |
T |
A |
5: 91,140,905 (GRCm38) |
Y23* |
probably null |
Het |
| Aspn |
A |
G |
13: 49,566,491 (GRCm38) |
T328A |
probably benign |
Het |
| B020011L13Rik |
A |
T |
1: 117,801,511 (GRCm38) |
E249D |
possibly damaging |
Het |
| Bptf |
G |
A |
11: 107,054,464 (GRCm38) |
Q2650* |
probably null |
Het |
| Btbd3 |
A |
T |
2: 138,283,744 (GRCm38) |
R283W |
probably damaging |
Het |
| Cep131 |
T |
C |
11: 120,064,789 (GRCm38) |
H1035R |
probably damaging |
Het |
| Cfap57 |
A |
T |
4: 118,576,703 (GRCm38) |
Y959* |
probably null |
Het |
| Cnot1 |
T |
C |
8: 95,788,658 (GRCm38) |
Y25C |
probably damaging |
Het |
| Crebbp |
G |
A |
16: 4,084,257 (GRCm38) |
H2373Y |
possibly damaging |
Het |
| Ctnna3 |
T |
C |
10: 64,250,768 (GRCm38) |
L373P |
probably damaging |
Het |
| Cyp8b1 |
T |
A |
9: 121,915,180 (GRCm38) |
D362V |
probably damaging |
Het |
| D430042O09Rik |
T |
C |
7: 125,872,239 (GRCm38) |
V1504A |
probably damaging |
Het |
| D630003M21Rik |
T |
A |
2: 158,216,012 (GRCm38) |
|
probably null |
Het |
| Dpp6 |
T |
C |
5: 27,598,803 (GRCm38) |
I249T |
probably damaging |
Het |
| Fam149b |
T |
G |
14: 20,378,472 (GRCm38) |
I475M |
probably damaging |
Het |
| Fat1 |
A |
G |
8: 45,023,503 (GRCm38) |
Y1862C |
probably damaging |
Het |
| Fcrl5 |
A |
T |
3: 87,446,412 (GRCm38) |
N355Y |
possibly damaging |
Het |
| Fgd6 |
C |
T |
10: 94,134,092 (GRCm38) |
T1201I |
probably damaging |
Het |
| Fndc8 |
A |
T |
11: 82,897,866 (GRCm38) |
D174V |
probably damaging |
Het |
| Gatb |
A |
G |
3: 85,574,220 (GRCm38) |
H26R |
probably benign |
Het |
| Gm37240 |
T |
A |
3: 84,497,807 (GRCm38) |
T230S |
probably benign |
Het |
| Gria4 |
T |
C |
9: 4,464,135 (GRCm38) |
Q609R |
probably damaging |
Het |
| Gse1 |
C |
A |
8: 120,230,702 (GRCm38) |
T644K |
unknown |
Het |
| Ifit1bl1 |
T |
G |
19: 34,594,164 (GRCm38) |
I298L |
probably benign |
Het |
| Il31ra |
T |
C |
13: 112,549,500 (GRCm38) |
D85G |
possibly damaging |
Het |
| Lyst |
T |
C |
13: 13,656,983 (GRCm38) |
L1664P |
probably damaging |
Het |
| Mrpl35 |
A |
G |
6: 71,817,738 (GRCm38) |
L82S |
possibly damaging |
Het |
| Myo7b |
G |
A |
18: 32,007,102 (GRCm38) |
R212C |
probably damaging |
Het |
| Myom2 |
T |
C |
8: 15,104,114 (GRCm38) |
V684A |
probably damaging |
Het |
| Nbeal1 |
G |
C |
1: 60,237,151 (GRCm38) |
V684L |
probably benign |
Het |
| Nop58 |
G |
T |
1: 59,710,380 (GRCm38) |
|
probably null |
Het |
| Nudt13 |
T |
A |
14: 20,309,784 (GRCm38) |
I193N |
possibly damaging |
Het |
| Nyap1 |
C |
A |
5: 137,737,982 (GRCm38) |
R81L |
probably damaging |
Het |
| Olfr388-ps1 |
T |
C |
11: 73,724,873 (GRCm38) |
I50M |
possibly damaging |
Het |
| Oxct2b |
A |
C |
4: 123,116,276 (GRCm38) |
|
probably benign |
Het |
| Pcf11 |
C |
T |
7: 92,663,476 (GRCm38) |
A230T |
probably benign |
Het |
| Phactr4 |
A |
T |
4: 132,358,271 (GRCm38) |
*695R |
probably null |
Het |
| Pkd1 |
T |
C |
17: 24,575,866 (GRCm38) |
S2176P |
probably damaging |
Het |
| Plch2 |
C |
A |
4: 155,009,086 (GRCm38) |
R133L |
probably damaging |
Het |
| Ptprq |
G |
T |
10: 107,685,171 (GRCm38) |
N713K |
probably damaging |
Het |
| Ptrh2 |
A |
T |
11: 86,689,967 (GRCm38) |
T137S |
probably benign |
Het |
| R3hdm1 |
A |
G |
1: 128,211,208 (GRCm38) |
Y718C |
possibly damaging |
Het |
| Rftn1 |
T |
A |
17: 49,994,307 (GRCm38) |
R505* |
probably null |
Het |
| Rps15a |
A |
G |
7: 118,109,111 (GRCm38) |
F128L |
probably benign |
Het |
| Slc25a25 |
A |
T |
2: 32,420,396 (GRCm38) |
M177K |
possibly damaging |
Het |
| Smgc |
C |
A |
15: 91,860,294 (GRCm38) |
P631Q |
probably damaging |
Het |
| Sox2 |
T |
C |
3: 34,651,157 (GRCm38) |
S248P |
probably damaging |
Het |
| Tes |
G |
T |
6: 17,104,762 (GRCm38) |
C414F |
probably damaging |
Het |
| Tet1 |
A |
T |
10: 62,814,501 (GRCm38) |
C14S |
probably null |
Het |
| Tle3 |
C |
T |
9: 61,412,305 (GRCm38) |
P452S |
probably damaging |
Het |
| Tmc6 |
A |
C |
11: 117,775,844 (GRCm38) |
L131R |
possibly damaging |
Het |
| Tnip3 |
C |
T |
6: 65,593,511 (GRCm38) |
R30* |
probably null |
Het |
| Tnrc6b |
G |
T |
15: 80,929,285 (GRCm38) |
G1748W |
probably damaging |
Het |
| Ugt2b38 |
T |
G |
5: 87,410,425 (GRCm38) |
D459A |
probably damaging |
Het |
| Zdhhc2 |
A |
T |
8: 40,467,439 (GRCm38) |
R246S |
probably damaging |
Het |
| Zscan22 |
T |
A |
7: 12,906,821 (GRCm38) |
C331S |
probably damaging |
Het |
|
| Other mutations in Sycp1 |
| Allele | Source | Chr | Coord | Type | Predicted Effect | PPH Score |
|---|
|
IGL00513:Sycp1
|
APN |
3 |
102,840,962 (GRCm38) |
missense |
probably benign |
|
|
IGL00833:Sycp1
|
APN |
3 |
102,876,301 (GRCm38) |
critical splice donor site |
probably null |
|
|
IGL01066:Sycp1
|
APN |
3 |
102,920,634 (GRCm38) |
missense |
probably damaging |
1.00 |
|
IGL01484:Sycp1
|
APN |
3 |
102,915,867 (GRCm38) |
missense |
probably benign |
0.01 |
|
IGL02139:Sycp1
|
APN |
3 |
102,865,114 (GRCm38) |
missense |
probably benign |
0.00 |
|
IGL02270:Sycp1
|
APN |
3 |
102,895,943 (GRCm38) |
missense |
probably benign |
0.12 |
|
IGL02347:Sycp1
|
APN |
3 |
102,893,547 (GRCm38) |
missense |
probably benign |
0.00 |
|
IGL02630:Sycp1
|
APN |
3 |
102,878,764 (GRCm38) |
splice site |
probably benign |
|
|
IGL02668:Sycp1
|
APN |
3 |
102,820,531 (GRCm38) |
splice site |
probably benign |
|
|
IGL02928:Sycp1
|
APN |
3 |
102,818,818 (GRCm38) |
utr 3 prime |
probably benign |
|
|
PIT4458001:Sycp1
|
UTSW |
3 |
102,934,833 (GRCm38) |
missense |
probably benign |
0.01 |
|
R0027:Sycp1
|
UTSW |
3 |
102,895,910 (GRCm38) |
missense |
probably benign |
|
|
R0282:Sycp1
|
UTSW |
3 |
102,915,795 (GRCm38) |
splice site |
probably benign |
|
|
R0462:Sycp1
|
UTSW |
3 |
102,819,106 (GRCm38) |
missense |
possibly damaging |
0.75 |
|
R0609:Sycp1
|
UTSW |
3 |
102,898,849 (GRCm38) |
splice site |
probably null |
|
|
R0837:Sycp1
|
UTSW |
3 |
102,915,245 (GRCm38) |
missense |
probably benign |
0.17 |
|
R1301:Sycp1
|
UTSW |
3 |
102,920,622 (GRCm38) |
missense |
probably benign |
0.02 |
|
R2408:Sycp1
|
UTSW |
3 |
102,925,259 (GRCm38) |
missense |
probably damaging |
1.00 |
|
R2449:Sycp1
|
UTSW |
3 |
102,925,206 (GRCm38) |
missense |
probably benign |
0.15 |
|
R2516:Sycp1
|
UTSW |
3 |
102,845,066 (GRCm38) |
missense |
probably benign |
0.09 |
|
R2880:Sycp1
|
UTSW |
3 |
102,818,898 (GRCm38) |
missense |
probably damaging |
0.99 |
|
R3410:Sycp1
|
UTSW |
3 |
102,841,041 (GRCm38) |
missense |
possibly damaging |
0.94 |
|
R3427:Sycp1
|
UTSW |
3 |
102,876,350 (GRCm38) |
missense |
probably benign |
0.00 |
|
R4538:Sycp1
|
UTSW |
3 |
102,840,962 (GRCm38) |
missense |
probably benign |
|
|
R4679:Sycp1
|
UTSW |
3 |
102,922,462 (GRCm38) |
critical splice acceptor site |
probably null |
|
|
R4707:Sycp1
|
UTSW |
3 |
102,853,489 (GRCm38) |
missense |
possibly damaging |
0.92 |
|
R4785:Sycp1
|
UTSW |
3 |
102,853,489 (GRCm38) |
missense |
possibly damaging |
0.92 |
|
R5017:Sycp1
|
UTSW |
3 |
102,895,987 (GRCm38) |
splice site |
probably null |
|
|
R5036:Sycp1
|
UTSW |
3 |
102,820,600 (GRCm38) |
missense |
probably damaging |
1.00 |
|
R5044:Sycp1
|
UTSW |
3 |
102,845,054 (GRCm38) |
missense |
probably benign |
0.03 |
|
R5070:Sycp1
|
UTSW |
3 |
102,920,565 (GRCm38) |
missense |
probably damaging |
0.97 |
|
R5079:Sycp1
|
UTSW |
3 |
102,878,800 (GRCm38) |
missense |
possibly damaging |
0.67 |
|
R5289:Sycp1
|
UTSW |
3 |
102,934,253 (GRCm38) |
missense |
possibly damaging |
0.85 |
|
R5393:Sycp1
|
UTSW |
3 |
102,841,047 (GRCm38) |
splice site |
probably null |
|
|
R5477:Sycp1
|
UTSW |
3 |
102,818,890 (GRCm38) |
missense |
probably damaging |
1.00 |
|
R5576:Sycp1
|
UTSW |
3 |
102,818,902 (GRCm38) |
missense |
probably damaging |
0.98 |
|
R5814:Sycp1
|
UTSW |
3 |
102,895,897 (GRCm38) |
missense |
probably benign |
0.03 |
|
R6291:Sycp1
|
UTSW |
3 |
102,908,961 (GRCm38) |
missense |
probably damaging |
1.00 |
|
R6460:Sycp1
|
UTSW |
3 |
102,925,253 (GRCm38) |
missense |
probably damaging |
1.00 |
|
R6527:Sycp1
|
UTSW |
3 |
102,898,887 (GRCm38) |
missense |
probably benign |
0.09 |
|
R6870:Sycp1
|
UTSW |
3 |
102,935,603 (GRCm38) |
missense |
probably damaging |
1.00 |
|
R6873:Sycp1
|
UTSW |
3 |
102,840,980 (GRCm38) |
missense |
probably benign |
|
|
R7037:Sycp1
|
UTSW |
3 |
102,898,934 (GRCm38) |
missense |
possibly damaging |
0.62 |
|
R7405:Sycp1
|
UTSW |
3 |
102,925,227 (GRCm38) |
missense |
possibly damaging |
0.72 |
|
R7604:Sycp1
|
UTSW |
3 |
102,913,433 (GRCm38) |
missense |
probably damaging |
0.98 |
|
R7733:Sycp1
|
UTSW |
3 |
102,895,962 (GRCm38) |
missense |
probably benign |
0.00 |
|
R7858:Sycp1
|
UTSW |
3 |
102,898,957 (GRCm38) |
missense |
probably benign |
0.09 |
|
R7909:Sycp1
|
UTSW |
3 |
102,820,626 (GRCm38) |
nonsense |
probably null |
|
|
R8109:Sycp1
|
UTSW |
3 |
102,851,602 (GRCm38) |
missense |
probably benign |
0.21 |
|
R8141:Sycp1
|
UTSW |
3 |
102,935,569 (GRCm38) |
missense |
possibly damaging |
0.73 |
|
R8289:Sycp1
|
UTSW |
3 |
102,841,037 (GRCm38) |
missense |
probably benign |
0.01 |
|
R8359:Sycp1
|
UTSW |
3 |
102,820,593 (GRCm38) |
missense |
probably damaging |
0.98 |
|
R8844:Sycp1
|
UTSW |
3 |
102,865,105 (GRCm38) |
missense |
probably damaging |
1.00 |
|
R9020:Sycp1
|
UTSW |
3 |
102,876,337 (GRCm38) |
missense |
probably benign |
0.01 |
|
R9149:Sycp1
|
UTSW |
3 |
102,851,628 (GRCm38) |
missense |
probably damaging |
1.00 |
|
| Predicted Primers |
PCR Primer
(F):5'- AACAGGGGATCAATAATATTCAAGC -3'
(R):5'- AAAATTAGTACTTTTGCTGGGGAG -3'
Sequencing Primer
(F):5'- GAAGACTGCCTTCAGTTC -3'
(R):5'- GCCTTTAACTTCATCACTGAGGAGG -3'
|
| Posted On |
2019-06-26 |
Incidental Mutation