Incidental Mutation 'IGL01996:Sptlc3'
| ID |
182930 |
| Institutional Source |
Australian Phenomics Network
(link to record)
|
| Gene Symbol |
Sptlc3
|
| Ensembl Gene |
ENSMUSG00000039092 |
| Gene Name |
serine palmitoyltransferase, long chain base subunit 3 |
| Synonyms |
|
| Accession Numbers |
|
| Essential gene? |
Probably non essential
(E-score: 0.104)
|
| Stock # |
IGL01996
|
| Quality Score |
|
|
Status
|
|
| Chromosome |
2 |
| Chromosomal Location |
139493913-139637674 bp(+) (GRCm38) |
| Type of Mutation |
splice site |
| DNA Base Change (assembly) |
T to C
at 139581504 bp (GRCm38)
|
| Zygosity |
Heterozygous |
| Amino Acid Change |
|
| Ref Sequence |
ENSEMBL: ENSMUSP00000105710
(fasta)
|
| Gene Model |
predicted gene model for transcript(s):
[ENSMUST00000047370]
[ENSMUST00000110083]
|
| AlphaFold |
Q8BG54 |
| Predicted Effect |
probably benign
Transcript: ENSMUST00000047370
|
| SMART Domains |
Protein: ENSMUSP00000048313
Gene: ENSMUSG00000039092
| Domain | Start | End | E-Value | Type |
|---|
|
transmembrane domain
|
60 |
79 |
N/A |
INTRINSIC |
|
Pfam:Aminotran_1_2
|
160 |
520 |
4.8e-59 |
PFAM |
|
| Predicted Effect |
probably benign
Transcript: ENSMUST00000110083
|
| SMART Domains |
Protein: ENSMUSP00000105710
Gene: ENSMUSG00000039092
| Domain | Start | End | E-Value | Type |
|---|
|
transmembrane domain
|
60 |
79 |
N/A |
INTRINSIC |
|
Pfam:Aminotran_1_2
|
160 |
520 |
4.8e-59 |
PFAM |
|
| Predicted Effect |
noncoding transcript
Transcript: ENSMUST00000134801
|
| Coding Region Coverage |
|
| Validation Efficiency |
|
| MGI Phenotype |
FUNCTION: [Summary is not available for the mouse gene. This summary is for the human ortholog.] The SPTLC3 gene encodes an isoform of the third subunit of serine palmitoyltransferase (SPT; EC 2.3.1.50), which catalyzes the rate-limiting step of the de novo synthesis of sphingolipids (Hornemann et al., 2006 [PubMed 17023427]). SPT contains 2 main subunits: the common SPTLC1 subunit (MIM 605712) and either SPTLC2 (MIM 605713) or its isoform SPTLC2L (SPTLC3), depending on the tissue in which biosynthesis occurs (Hornemann et al., 2006 [PubMed 17023427]). There are also 2 highly related isoforms of a third subunit, SSSPTA (MIM 613540) and SSSPTB (MIM 610412), that confer acyl-CoA preference of the SPT enzyme and are essential for maximal enzyme activity (Han et al., 2009 [PubMed 19416851]).[supplied by OMIM, Nov 2010]
|
| Allele List at MGI |
|
| Other mutations in this stock |
Total: 52 list
| Gene | Ref | Var | Chr/Loc | Mutation | Predicted Effect | Zygosity |
|---|
| 3110009E18Rik |
T |
C |
1: 120,150,700 (GRCm38) |
V29A |
possibly damaging |
Het |
| Adarb1 |
A |
G |
10: 77,322,217 (GRCm38) |
L132P |
probably damaging |
Het |
| Afg3l1 |
T |
G |
8: 123,501,894 (GRCm38) |
M733R |
probably damaging |
Het |
| Aox1 |
C |
T |
1: 58,082,066 (GRCm38) |
R899C |
probably benign |
Het |
| Arhgap44 |
T |
A |
11: 65,005,496 (GRCm38) |
|
probably benign |
Het |
| Asns |
T |
C |
6: 7,682,378 (GRCm38) |
D189G |
possibly damaging |
Het |
| Brap |
A |
G |
5: 121,678,847 (GRCm38) |
|
probably benign |
Het |
| Ccdc138 |
T |
A |
10: 58,562,030 (GRCm38) |
L564H |
probably damaging |
Het |
| Ccdc167 |
A |
G |
17: 29,705,487 (GRCm38) |
|
probably null |
Het |
| Ccdc178 |
A |
G |
18: 22,097,756 (GRCm38) |
Y353H |
probably damaging |
Het |
| Clca3b |
A |
T |
3: 144,849,163 (GRCm38) |
S41R |
probably benign |
Het |
| Dpep3 |
T |
C |
8: 105,974,726 (GRCm38) |
N397S |
probably damaging |
Het |
| Eif1 |
T |
C |
11: 100,321,000 (GRCm38) |
I83T |
probably benign |
Het |
| Enah |
A |
T |
1: 181,956,505 (GRCm38) |
W80R |
unknown |
Het |
| F2rl1 |
C |
T |
13: 95,513,924 (GRCm38) |
C150Y |
probably damaging |
Het |
| Fbxw24 |
T |
C |
9: 109,605,372 (GRCm38) |
R387G |
possibly damaging |
Het |
| Fsd1l |
A |
G |
4: 53,647,760 (GRCm38) |
T68A |
probably benign |
Het |
| Greb1 |
T |
C |
12: 16,690,845 (GRCm38) |
K1412R |
possibly damaging |
Het |
| Grin2b |
T |
C |
6: 135,732,586 (GRCm38) |
S1321G |
probably damaging |
Het |
| Hist1h4j |
G |
A |
13: 21,735,138 (GRCm38) |
G15S |
unknown |
Het |
| Itgb7 |
C |
T |
15: 102,217,977 (GRCm38) |
G508D |
probably damaging |
Het |
| Kcnq3 |
A |
G |
15: 66,023,696 (GRCm38) |
I333T |
probably damaging |
Het |
| Knl1 |
A |
G |
2: 119,104,061 (GRCm38) |
D2115G |
probably damaging |
Het |
| Lmtk3 |
G |
A |
7: 45,793,447 (GRCm38) |
|
probably null |
Het |
| Lrpprc |
A |
G |
17: 84,773,270 (GRCm38) |
Y176H |
probably benign |
Het |
| Mier1 |
T |
C |
4: 103,127,276 (GRCm38) |
S22P |
possibly damaging |
Het |
| Mme |
A |
T |
3: 63,343,549 (GRCm38) |
N337I |
probably benign |
Het |
| Mthfd1 |
A |
G |
12: 76,303,905 (GRCm38) |
Y687C |
probably damaging |
Het |
| Nrp2 |
T |
C |
1: 62,749,260 (GRCm38) |
M373T |
probably damaging |
Het |
| Nudcd1 |
A |
T |
15: 44,405,961 (GRCm38) |
F101Y |
probably benign |
Het |
| Nup133 |
T |
A |
8: 123,946,595 (GRCm38) |
I66L |
probably benign |
Het |
| Olfr1406 |
T |
C |
1: 173,183,727 (GRCm38) |
T236A |
probably benign |
Het |
| Olfr378 |
T |
A |
11: 73,425,968 (GRCm38) |
N5I |
probably damaging |
Het |
| Olfr736 |
T |
G |
14: 50,393,659 (GRCm38) |
M301R |
probably damaging |
Het |
| Osbpl5 |
A |
G |
7: 143,707,344 (GRCm38) |
|
probably null |
Het |
| Paqr8 |
T |
C |
1: 20,935,404 (GRCm38) |
F261L |
probably damaging |
Het |
| Plxna2 |
A |
G |
1: 194,799,776 (GRCm38) |
E1452G |
probably damaging |
Het |
| Polh |
T |
C |
17: 46,173,001 (GRCm38) |
D446G |
probably benign |
Het |
| Psg19 |
A |
T |
7: 18,790,061 (GRCm38) |
M353K |
possibly damaging |
Het |
| Sap25 |
T |
C |
5: 137,641,818 (GRCm38) |
|
probably null |
Het |
| Sap30l |
C |
T |
11: 57,809,951 (GRCm38) |
R144* |
probably null |
Het |
| Sema6b |
C |
T |
17: 56,131,157 (GRCm38) |
V144M |
probably damaging |
Het |
| Sfmbt2 |
T |
C |
2: 10,440,026 (GRCm38) |
Y228H |
probably benign |
Het |
| Shank2 |
A |
G |
7: 144,411,493 (GRCm38) |
D946G |
probably damaging |
Het |
| Slc11a1 |
T |
A |
1: 74,376,806 (GRCm38) |
L52Q |
possibly damaging |
Het |
| Tgfb1i1 |
T |
C |
7: 128,249,292 (GRCm38) |
|
probably benign |
Het |
| Tifa |
T |
C |
3: 127,796,580 (GRCm38) |
|
probably benign |
Het |
| Tomm40l |
C |
T |
1: 171,219,655 (GRCm38) |
V265M |
possibly damaging |
Het |
| Trim45 |
C |
A |
3: 100,928,109 (GRCm38) |
Y469* |
probably null |
Het |
| Ttc21a |
G |
T |
9: 119,958,116 (GRCm38) |
A730S |
probably damaging |
Het |
| Vmn1r18 |
A |
T |
6: 57,390,016 (GRCm38) |
D184E |
possibly damaging |
Het |
| Vmn2r120 |
A |
T |
17: 57,525,222 (GRCm38) |
I189N |
possibly damaging |
Het |
|
| Other mutations in Sptlc3 |
| Allele | Source | Chr | Coord | Type | Predicted Effect | PPH Score |
|---|
|
IGL01392:Sptlc3
|
APN |
2 |
139,546,421 (GRCm38) |
missense |
possibly damaging |
0.55 |
|
IGL01537:Sptlc3
|
APN |
2 |
139,589,695 (GRCm38) |
missense |
possibly damaging |
0.95 |
|
IGL02512:Sptlc3
|
APN |
2 |
139,547,203 (GRCm38) |
missense |
probably damaging |
1.00 |
|
IGL03278:Sptlc3
|
APN |
2 |
139,589,659 (GRCm38) |
missense |
probably damaging |
1.00 |
|
IGL03286:Sptlc3
|
APN |
2 |
139,589,659 (GRCm38) |
missense |
probably damaging |
1.00 |
|
R0266:Sptlc3
|
UTSW |
2 |
139,596,037 (GRCm38) |
missense |
possibly damaging |
0.93 |
|
R0362:Sptlc3
|
UTSW |
2 |
139,546,555 (GRCm38) |
splice site |
probably benign |
|
|
R1464:Sptlc3
|
UTSW |
2 |
139,547,234 (GRCm38) |
missense |
probably benign |
0.00 |
|
R1464:Sptlc3
|
UTSW |
2 |
139,547,234 (GRCm38) |
missense |
probably benign |
0.00 |
|
R1494:Sptlc3
|
UTSW |
2 |
139,589,560 (GRCm38) |
missense |
possibly damaging |
0.58 |
|
R1847:Sptlc3
|
UTSW |
2 |
139,625,923 (GRCm38) |
missense |
probably benign |
0.08 |
|
R1919:Sptlc3
|
UTSW |
2 |
139,566,675 (GRCm38) |
missense |
possibly damaging |
0.66 |
|
R2093:Sptlc3
|
UTSW |
2 |
139,625,874 (GRCm38) |
missense |
possibly damaging |
0.89 |
|
R2396:Sptlc3
|
UTSW |
2 |
139,566,586 (GRCm38) |
missense |
probably benign |
0.44 |
|
R2972:Sptlc3
|
UTSW |
2 |
139,589,661 (GRCm38) |
missense |
probably damaging |
1.00 |
|
R2973:Sptlc3
|
UTSW |
2 |
139,589,661 (GRCm38) |
missense |
probably damaging |
1.00 |
|
R2974:Sptlc3
|
UTSW |
2 |
139,589,661 (GRCm38) |
missense |
probably damaging |
1.00 |
|
R4601:Sptlc3
|
UTSW |
2 |
139,636,680 (GRCm38) |
missense |
probably benign |
0.01 |
|
R4602:Sptlc3
|
UTSW |
2 |
139,636,680 (GRCm38) |
missense |
probably benign |
0.01 |
|
R4610:Sptlc3
|
UTSW |
2 |
139,636,680 (GRCm38) |
missense |
probably benign |
0.01 |
|
R4745:Sptlc3
|
UTSW |
2 |
139,547,167 (GRCm38) |
missense |
probably damaging |
1.00 |
|
R4779:Sptlc3
|
UTSW |
2 |
139,589,589 (GRCm38) |
missense |
probably benign |
0.04 |
|
R4992:Sptlc3
|
UTSW |
2 |
139,596,003 (GRCm38) |
missense |
probably benign |
0.04 |
|
R5162:Sptlc3
|
UTSW |
2 |
139,631,343 (GRCm38) |
missense |
probably benign |
0.11 |
|
R5401:Sptlc3
|
UTSW |
2 |
139,636,723 (GRCm38) |
missense |
possibly damaging |
0.75 |
|
R5406:Sptlc3
|
UTSW |
2 |
139,546,478 (GRCm38) |
missense |
probably benign |
0.26 |
|
R5642:Sptlc3
|
UTSW |
2 |
139,546,408 (GRCm38) |
missense |
probably damaging |
0.96 |
|
R5840:Sptlc3
|
UTSW |
2 |
139,547,206 (GRCm38) |
missense |
probably damaging |
1.00 |
|
R6057:Sptlc3
|
UTSW |
2 |
139,581,613 (GRCm38) |
missense |
probably damaging |
0.99 |
|
R6376:Sptlc3
|
UTSW |
2 |
139,636,772 (GRCm38) |
missense |
probably benign |
0.21 |
|
R6852:Sptlc3
|
UTSW |
2 |
139,566,586 (GRCm38) |
missense |
probably benign |
0.44 |
|
R7026:Sptlc3
|
UTSW |
2 |
139,537,688 (GRCm38) |
missense |
probably benign |
|
|
R7412:Sptlc3
|
UTSW |
2 |
139,589,617 (GRCm38) |
missense |
possibly damaging |
0.75 |
|
R7516:Sptlc3
|
UTSW |
2 |
139,589,518 (GRCm38) |
missense |
probably benign |
0.11 |
|
R7733:Sptlc3
|
UTSW |
2 |
139,631,368 (GRCm38) |
missense |
possibly damaging |
0.77 |
|
R7826:Sptlc3
|
UTSW |
2 |
139,547,195 (GRCm38) |
missense |
probably benign |
0.44 |
|
R7949:Sptlc3
|
UTSW |
2 |
139,625,875 (GRCm38) |
missense |
possibly damaging |
0.81 |
|
R9224:Sptlc3
|
UTSW |
2 |
139,494,234 (GRCm38) |
missense |
probably benign |
0.17 |
|
R9237:Sptlc3
|
UTSW |
2 |
139,566,685 (GRCm38) |
missense |
probably benign |
0.40 |
|
R9319:Sptlc3
|
UTSW |
2 |
139,636,810 (GRCm38) |
missense |
possibly damaging |
0.65 |
|
R9330:Sptlc3
|
UTSW |
2 |
139,546,503 (GRCm38) |
missense |
probably benign |
|
|
| Posted On |
2014-05-07 |
Incidental Mutation