Incidental Mutation 'R2292:Letm1'
| ID |
245026 |
| Institutional Source |
Beutler Lab
|
| Gene Symbol |
Letm1
|
| Ensembl Gene |
ENSMUSG00000005299 |
| Gene Name |
leucine zipper-EF-hand containing transmembrane protein 1 |
| Synonyms |
|
| MMRRC Submission |
040291-MU
|
| Accession Numbers |
|
| Essential gene? |
Probably essential
(E-score: 0.961)
|
| Stock # |
R2292 (G1)
|
| Quality Score |
217 |
|
Status
|
Validated
|
| Chromosome |
5 |
| Chromosomal Location |
33897017-33940061 bp(-) (GRCm39) |
| Type of Mutation |
frame shift |
| DNA Base Change (assembly) |
A to AG
at 33926859 bp (GRCm39)
|
| Zygosity |
Heterozygous |
| Amino Acid Change |
|
| Ref Sequence |
ENSEMBL: ENSMUSP00000005431
(fasta)
|
| Gene Model |
predicted gene model for transcript(s):
[ENSMUST00000005431]
|
| AlphaFold |
Q9Z2I0 |
| Predicted Effect |
probably null
Transcript: ENSMUST00000005431
|
| SMART Domains |
Protein: ENSMUSP00000005431
Gene: ENSMUSG00000005299
| Domain | Start | End | E-Value | Type |
|---|
|
low complexity region
|
10 |
30 |
N/A |
INTRINSIC |
|
low complexity region
|
120 |
135 |
N/A |
INTRINSIC |
|
Pfam:LETM1
|
152 |
417 |
1.2e-111 |
PFAM |
|
coiled coil region
|
445 |
493 |
N/A |
INTRINSIC |
|
low complexity region
|
503 |
513 |
N/A |
INTRINSIC |
|
coiled coil region
|
537 |
598 |
N/A |
INTRINSIC |
|
SCOP:d1c7va_
|
647 |
691 |
4e-3 |
SMART |
|
coiled coil region
|
708 |
738 |
N/A |
INTRINSIC |
|
| Predicted Effect |
noncoding transcript
Transcript: ENSMUST00000144071
|
| Predicted Effect |
probably benign
Transcript: ENSMUST00000200827
|
| Predicted Effect |
noncoding transcript
Transcript: ENSMUST00000201981
|
| Meta Mutation Damage Score |
0.9755 |
| Coding Region Coverage |
- 1x: 99.2%
- 3x: 98.6%
- 10x: 97.3%
- 20x: 94.8%
|
| Validation Efficiency |
100% (44/44) |
| MGI Phenotype |
FUNCTION: [Summary is not available for the mouse gene. This summary is for the human ortholog.] This gene encodes a protein that is localized to the inner mitochondrial membrane. The protein functions to maintain the mitochondrial tubular shapes and is required for normal mitochondrial morphology and cellular viability. Mutations in this gene cause Wolf-Hirschhorn syndrome, a complex malformation syndrome caused by the deletion of parts of the distal short arm of chromosome 4. Related pseudogenes have been identified on chromosomes 8, 15 and 19. [provided by RefSeq, Oct 2009]
PHENOTYPE: Homozygous deletion of this gene causes embryonic lethality prior to E6.5 while ~50% of heterozygotes die before E13.5. Surviving heterozygous mice show altered glucose metabolism, impaired control of brain ATP levels, and increased susceptibility to kainic acid-induced seizures. [provided by MGI curators]
|
| Allele List at MGI |
|
| Other mutations in this stock |
Total: 41 list
| Gene | Ref | Var | Chr/Loc | Mutation | Predicted Effect | Zygosity |
|---|
| 4932414N04Rik |
T |
C |
2: 68,562,483 (GRCm39) |
I370T |
probably benign |
Het |
| A2m |
A |
G |
6: 121,650,518 (GRCm39) |
T1209A |
possibly damaging |
Het |
| Als2 |
T |
C |
1: 59,226,544 (GRCm39) |
Q920R |
probably damaging |
Het |
| Arhgap20 |
T |
A |
9: 51,760,743 (GRCm39) |
Y829N |
possibly damaging |
Het |
| Arhgap35 |
A |
T |
7: 16,297,476 (GRCm39) |
F530I |
probably damaging |
Het |
| Arid4a |
G |
T |
12: 71,108,315 (GRCm39) |
G40V |
probably damaging |
Het |
| Ascc2 |
T |
C |
11: 4,629,352 (GRCm39) |
|
probably benign |
Het |
| Cacna1b |
C |
T |
2: 24,496,632 (GRCm39) |
V2312I |
probably benign |
Het |
| Dctn6 |
T |
C |
8: 34,559,679 (GRCm39) |
T159A |
probably benign |
Het |
| Ddx55 |
G |
T |
5: 124,706,140 (GRCm39) |
A522S |
probably benign |
Het |
| Dnah6 |
G |
A |
6: 72,998,092 (GRCm39) |
T4110I |
probably damaging |
Het |
| Dvl1 |
G |
A |
4: 155,932,273 (GRCm39) |
V28I |
possibly damaging |
Het |
| Dym |
A |
G |
18: 75,332,283 (GRCm39) |
T504A |
possibly damaging |
Het |
| E130308A19Rik |
T |
C |
4: 59,690,579 (GRCm39) |
Y138H |
probably damaging |
Het |
| Fgd4 |
A |
T |
16: 16,253,864 (GRCm39) |
C568S |
possibly damaging |
Het |
| Fkbp4 |
A |
C |
6: 128,413,625 (GRCm39) |
V6G |
probably damaging |
Het |
| Flg2 |
A |
T |
3: 93,127,984 (GRCm39) |
S2299C |
unknown |
Het |
| Gdf2 |
A |
T |
14: 33,667,145 (GRCm39) |
N289I |
possibly damaging |
Het |
| Gpr182 |
A |
G |
10: 127,586,051 (GRCm39) |
I300T |
possibly damaging |
Het |
| Iqcg |
A |
G |
16: 32,870,253 (GRCm39) |
V80A |
probably benign |
Het |
| Lyst |
T |
G |
13: 13,915,080 (GRCm39) |
F3258C |
probably damaging |
Het |
| Map3k12 |
T |
C |
15: 102,408,574 (GRCm39) |
E870G |
probably damaging |
Het |
| Mphosph10 |
G |
A |
7: 64,035,519 (GRCm39) |
P384L |
probably damaging |
Het |
| Ncoa4 |
T |
G |
14: 31,895,413 (GRCm39) |
L179R |
probably damaging |
Het |
| Nlrp1c-ps |
A |
G |
11: 71,137,188 (GRCm39) |
|
noncoding transcript |
Het |
| Nwd2 |
A |
T |
5: 63,962,917 (GRCm39) |
M834L |
probably benign |
Het |
| Or10a49 |
A |
T |
7: 108,468,223 (GRCm39) |
M46K |
probably benign |
Het |
| Or2w6 |
A |
G |
13: 21,843,001 (GRCm39) |
M164T |
probably damaging |
Het |
| Pccb |
T |
C |
9: 100,876,685 (GRCm39) |
E266G |
probably benign |
Het |
| Pcdhb2 |
T |
A |
18: 37,430,297 (GRCm39) |
|
probably null |
Het |
| Pramel25 |
T |
C |
4: 143,520,446 (GRCm39) |
I66T |
probably benign |
Het |
| Prdm13 |
A |
C |
4: 21,683,914 (GRCm39) |
I119S |
unknown |
Het |
| Tchh |
A |
G |
3: 93,349,689 (GRCm39) |
Y18C |
probably damaging |
Het |
| Tmem192 |
T |
C |
8: 65,411,998 (GRCm39) |
V59A |
probably damaging |
Het |
| Trak2 |
A |
T |
1: 58,974,916 (GRCm39) |
F92Y |
probably damaging |
Het |
| Trappc11 |
C |
T |
8: 47,958,771 (GRCm39) |
G40D |
probably damaging |
Het |
| Ttc23 |
A |
T |
7: 67,319,535 (GRCm39) |
I132F |
probably benign |
Het |
| Ttc9b |
A |
G |
7: 27,355,405 (GRCm39) |
D225G |
probably benign |
Het |
| Ubr3 |
G |
T |
2: 69,727,604 (GRCm39) |
|
probably benign |
Het |
| Vmn2r75 |
A |
C |
7: 85,798,144 (GRCm39) |
C556W |
probably damaging |
Het |
| Zbtb41 |
T |
C |
1: 139,368,097 (GRCm39) |
V595A |
probably damaging |
Het |
|
| Other mutations in Letm1 |
| Allele | Source | Chr | Coord | Type | Predicted Effect | PPH Score |
|---|
|
IGL01013:Letm1
|
APN |
5 |
33,919,934 (GRCm39) |
missense |
possibly damaging |
0.82 |
|
IGL01073:Letm1
|
APN |
5 |
33,906,144 (GRCm39) |
missense |
possibly damaging |
0.89 |
|
IGL01882:Letm1
|
APN |
5 |
33,927,009 (GRCm39) |
missense |
probably benign |
0.00 |
|
IGL02186:Letm1
|
APN |
5 |
33,902,391 (GRCm39) |
missense |
probably benign |
0.00 |
|
IGL02699:Letm1
|
APN |
5 |
33,902,492 (GRCm39) |
missense |
possibly damaging |
0.93 |
|
IGL03089:Letm1
|
APN |
5 |
33,918,202 (GRCm39) |
missense |
probably damaging |
1.00 |
|
R0466:Letm1
|
UTSW |
5 |
33,919,074 (GRCm39) |
splice site |
probably benign |
|
|
R0639:Letm1
|
UTSW |
5 |
33,926,770 (GRCm39) |
missense |
possibly damaging |
0.88 |
|
R1370:Letm1
|
UTSW |
5 |
33,936,026 (GRCm39) |
splice site |
probably null |
|
|
R1415:Letm1
|
UTSW |
5 |
33,926,906 (GRCm39) |
missense |
probably benign |
0.06 |
|
R1511:Letm1
|
UTSW |
5 |
33,909,899 (GRCm39) |
missense |
probably damaging |
1.00 |
|
R1714:Letm1
|
UTSW |
5 |
33,918,228 (GRCm39) |
missense |
possibly damaging |
0.51 |
|
R1771:Letm1
|
UTSW |
5 |
33,926,811 (GRCm39) |
missense |
probably damaging |
1.00 |
|
R1990:Letm1
|
UTSW |
5 |
33,926,859 (GRCm39) |
frame shift |
probably null |
|
|
R1991:Letm1
|
UTSW |
5 |
33,926,859 (GRCm39) |
frame shift |
probably null |
|
|
R2143:Letm1
|
UTSW |
5 |
33,926,859 (GRCm39) |
frame shift |
probably null |
|
|
R2145:Letm1
|
UTSW |
5 |
33,926,859 (GRCm39) |
frame shift |
probably null |
|
|
R2202:Letm1
|
UTSW |
5 |
33,926,830 (GRCm39) |
missense |
possibly damaging |
0.64 |
|
R2290:Letm1
|
UTSW |
5 |
33,926,859 (GRCm39) |
frame shift |
probably null |
|
|
R5574:Letm1
|
UTSW |
5 |
33,926,730 (GRCm39) |
missense |
possibly damaging |
0.46 |
|
R6954:Letm1
|
UTSW |
5 |
33,939,851 (GRCm39) |
missense |
probably benign |
0.35 |
|
R7265:Letm1
|
UTSW |
5 |
33,935,992 (GRCm39) |
missense |
possibly damaging |
0.62 |
|
R8713:Letm1
|
UTSW |
5 |
33,919,849 (GRCm39) |
missense |
probably damaging |
1.00 |
|
R9028:Letm1
|
UTSW |
5 |
33,909,847 (GRCm39) |
missense |
probably damaging |
1.00 |
|
R9061:Letm1
|
UTSW |
5 |
33,918,213 (GRCm39) |
missense |
probably damaging |
1.00 |
|
R9420:Letm1
|
UTSW |
5 |
33,926,802 (GRCm39) |
missense |
probably damaging |
1.00 |
|
S24628:Letm1
|
UTSW |
5 |
33,904,790 (GRCm39) |
missense |
probably benign |
|
|
S24628:Letm1
|
UTSW |
5 |
33,904,788 (GRCm39) |
missense |
probably benign |
0.00 |
|
X0066:Letm1
|
UTSW |
5 |
33,919,915 (GRCm39) |
missense |
probably damaging |
1.00 |
|
| Predicted Primers |
PCR Primer
(F):5'- CGTTTTATCCAGAGGAGTAGAGC -3'
(R):5'- AACATGGACACCTGCCTCTG -3'
Sequencing Primer
(F):5'- TTTATCCAGAGGAGTAGAGCATAACC -3'
(R):5'- CTCTGCAAGGCTGGTGGTTAC -3'
|
| Posted On |
2014-10-30 |
Incidental Mutation