Incidental Mutation 'IGL01349:Lca5'
| ID |
75290 |
| Institutional Source |
Australian Phenomics Network
(link to record)
|
| Gene Symbol |
Lca5
|
| Ensembl Gene |
ENSMUSG00000032258 |
| Gene Name |
Leber congenital amaurosis 5 (human) |
| Synonyms |
4930431B11Rik, ORF64, 5730406O13Rik |
| Accession Numbers |
|
| Essential gene? |
Possibly non essential
(E-score: 0.454)
|
| Stock # |
IGL01349
|
| Quality Score |
|
|
Status
|
|
| Chromosome |
9 |
| Chromosomal Location |
83272346-83323180 bp(-) (GRCm39) |
| Type of Mutation |
missense |
| DNA Base Change (assembly) |
A to G
at 83308670 bp (GRCm39)
|
| Zygosity |
Heterozygous |
| Amino Acid Change |
Serine to Proline
at position 59
(S59P)
|
| Ref Sequence |
ENSEMBL: ENSMUSP00000140753
(fasta)
|
| Gene Model |
predicted gene model for transcript(s):
[ENSMUST00000034791]
[ENSMUST00000034793]
[ENSMUST00000186802]
[ENSMUST00000188548]
[ENSMUST00000190514]
|
| AlphaFold |
no structure available at present |
| Predicted Effect |
probably damaging
Transcript: ENSMUST00000034791
AA Change: S59P
PolyPhen 2
Score 0.999 (Sensitivity: 0.14; Specificity: 0.99)
|
| SMART Domains |
Protein: ENSMUSP00000034791
Gene: ENSMUSG00000032258
AA Change: S59P
| Domain | Start | End | E-Value | Type |
|---|
|
low complexity region
|
25 |
40 |
N/A |
INTRINSIC |
|
Pfam:Lebercilin
|
103 |
295 |
2.6e-66 |
PFAM |
|
low complexity region
|
306 |
315 |
N/A |
INTRINSIC |
|
low complexity region
|
617 |
627 |
N/A |
INTRINSIC |
|
| Predicted Effect |
probably damaging
Transcript: ENSMUST00000034793
AA Change: S59P
PolyPhen 2
Score 1.000 (Sensitivity: 0.00; Specificity: 1.00)
|
| SMART Domains |
Protein: ENSMUSP00000034793
Gene: ENSMUSG00000032258
AA Change: S59P
| Domain | Start | End | E-Value | Type |
|---|
|
low complexity region
|
25 |
40 |
N/A |
INTRINSIC |
|
Pfam:Lebercilin
|
102 |
295 |
4.8e-71 |
PFAM |
|
low complexity region
|
306 |
315 |
N/A |
INTRINSIC |
|
| Predicted Effect |
probably damaging
Transcript: ENSMUST00000186802
AA Change: S59P
PolyPhen 2
Score 0.999 (Sensitivity: 0.14; Specificity: 0.99)
|
| SMART Domains |
Protein: ENSMUSP00000139529
Gene: ENSMUSG00000032258
AA Change: S59P
| Domain | Start | End | E-Value | Type |
|---|
|
low complexity region
|
25 |
40 |
N/A |
INTRINSIC |
|
Pfam:Lebercilin
|
102 |
176 |
1e-29 |
PFAM |
|
| Predicted Effect |
noncoding transcript
Transcript: ENSMUST00000188217
|
| Predicted Effect |
probably benign
Transcript: ENSMUST00000188548
|
| Predicted Effect |
noncoding transcript
Transcript: ENSMUST00000188907
|
| Predicted Effect |
noncoding transcript
Transcript: ENSMUST00000190373
|
| Predicted Effect |
probably damaging
Transcript: ENSMUST00000190514
AA Change: S59P
PolyPhen 2
Score 1.000 (Sensitivity: 0.00; Specificity: 1.00)
|
| SMART Domains |
Protein: ENSMUSP00000140753
Gene: ENSMUSG00000032258
AA Change: S59P
| Domain | Start | End | E-Value | Type |
|---|
|
low complexity region
|
25 |
40 |
N/A |
INTRINSIC |
|
Pfam:Lebercilin
|
102 |
295 |
5.8e-71 |
PFAM |
|
low complexity region
|
306 |
315 |
N/A |
INTRINSIC |
|
| Predicted Effect |
noncoding transcript
Transcript: ENSMUST00000190557
|
| Coding Region Coverage |
|
| Validation Efficiency |
|
| 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 thought to be involved in centrosomal or ciliary functions. Mutations in this gene cause Leber congenital amaurosis type V. Alternatively spliced transcript variants are described. [provided by RefSeq, Oct 2009]
PHENOTYPE: Mice homozygous for a gene trapped allele exhibit retinal patches of depigmentation, lack rod and cone ERG responses to light stimuli, and show loss of ciliary intraflagellar transport function in photoreceptors leading to failure of outer segment formation and photoreceptor degeneration. [provided by MGI curators]
|
| Allele List at MGI |
|
| Other mutations in this stock |
Total: 46 list
| Gene | Ref | Var | Chr/Loc | Mutation | Predicted Effect | Zygosity |
|---|
| Abca13 |
C |
T |
11: 9,242,076 (GRCm39) |
S1313L |
probably benign |
Het |
| Adam28 |
T |
C |
14: 68,848,455 (GRCm39) |
H667R |
probably benign |
Het |
| Arap1 |
T |
C |
7: 101,036,359 (GRCm39) |
V382A |
possibly damaging |
Het |
| Arih2 |
T |
C |
9: 108,482,609 (GRCm39) |
Y444C |
probably damaging |
Het |
| Asxl3 |
T |
G |
18: 22,657,294 (GRCm39) |
V1768G |
probably benign |
Het |
| Bbs9 |
T |
A |
9: 22,798,979 (GRCm39) |
M869K |
probably benign |
Het |
| C4bp |
A |
G |
1: 130,570,665 (GRCm39) |
|
probably benign |
Het |
| Cc2d2a |
A |
T |
5: 43,881,126 (GRCm39) |
Y1167F |
probably benign |
Het |
| Cgn |
T |
A |
3: 94,674,486 (GRCm39) |
K884* |
probably null |
Het |
| Chd1l |
T |
C |
3: 97,498,550 (GRCm39) |
Y283C |
probably benign |
Het |
| Cry1 |
A |
G |
10: 84,984,603 (GRCm39) |
V157A |
probably benign |
Het |
| Dcc |
T |
A |
18: 71,503,808 (GRCm39) |
D950V |
probably damaging |
Het |
| Dlc1 |
A |
G |
8: 37,050,978 (GRCm39) |
F918L |
probably damaging |
Het |
| Dnah2 |
T |
C |
11: 69,366,432 (GRCm39) |
N1890S |
probably damaging |
Het |
| Dnah5 |
A |
G |
15: 28,295,059 (GRCm39) |
|
probably benign |
Het |
| Eif4b |
C |
T |
15: 101,999,858 (GRCm39) |
T412I |
probably benign |
Het |
| Eloa |
A |
C |
4: 135,741,758 (GRCm39) |
Y29D |
probably benign |
Het |
| Erbb4 |
A |
G |
1: 68,385,752 (GRCm39) |
F279S |
probably benign |
Het |
| Etl4 |
A |
G |
2: 20,718,207 (GRCm39) |
D316G |
probably damaging |
Het |
| Gm5114 |
T |
C |
7: 39,058,531 (GRCm39) |
S363G |
probably benign |
Het |
| Gpam |
A |
G |
19: 55,084,551 (GRCm39) |
|
probably null |
Het |
| Il17rd |
T |
A |
14: 26,817,901 (GRCm39) |
S197T |
probably damaging |
Het |
| Iqsec3 |
T |
C |
6: 121,450,083 (GRCm39) |
E147G |
possibly damaging |
Het |
| Itk |
T |
A |
11: 46,232,027 (GRCm39) |
T303S |
possibly damaging |
Het |
| Kcnh6 |
A |
G |
11: 105,914,743 (GRCm39) |
D716G |
possibly damaging |
Het |
| Lrrc40 |
T |
C |
3: 157,764,302 (GRCm39) |
|
probably benign |
Het |
| Mmp7 |
T |
C |
9: 7,699,335 (GRCm39) |
|
probably benign |
Het |
| Mycbp2 |
T |
C |
14: 103,359,983 (GRCm39) |
T4427A |
probably damaging |
Het |
| Nf2 |
T |
C |
11: 4,734,472 (GRCm39) |
D513G |
possibly damaging |
Het |
| Or2y1b |
T |
A |
11: 49,209,127 (GRCm39) |
Y251* |
probably null |
Het |
| Pde7a |
C |
T |
3: 19,283,843 (GRCm39) |
|
probably benign |
Het |
| Pira2 |
T |
C |
7: 3,847,138 (GRCm39) |
T135A |
probably damaging |
Het |
| Rb1 |
T |
C |
14: 73,506,558 (GRCm39) |
Y397C |
probably damaging |
Het |
| Ros1 |
A |
T |
10: 51,927,122 (GRCm39) |
M2187K |
probably damaging |
Het |
| Ryr2 |
T |
A |
13: 11,602,125 (GRCm39) |
I4586F |
possibly damaging |
Het |
| Serpinb3c |
A |
T |
1: 107,200,513 (GRCm39) |
M210K |
probably damaging |
Het |
| Slc22a19 |
C |
A |
19: 7,651,792 (GRCm39) |
V472F |
probably benign |
Het |
| Slc4a11 |
A |
G |
2: 130,528,863 (GRCm39) |
I462T |
probably benign |
Het |
| Spag11b |
A |
T |
8: 19,191,492 (GRCm39) |
H55L |
probably damaging |
Het |
| Trpv5 |
G |
T |
6: 41,652,309 (GRCm39) |
N125K |
possibly damaging |
Het |
| Ubr4 |
G |
T |
4: 139,208,039 (GRCm39) |
R4940L |
unknown |
Het |
| Vcan |
T |
A |
13: 89,852,062 (GRCm39) |
H966L |
probably damaging |
Het |
| Vmn1r204 |
T |
A |
13: 22,740,504 (GRCm39) |
I45K |
probably damaging |
Het |
| Vnn3 |
A |
T |
10: 23,727,814 (GRCm39) |
I75F |
probably damaging |
Het |
| Vps13b |
A |
T |
15: 35,794,091 (GRCm39) |
M2256L |
probably benign |
Het |
| Zfc3h1 |
T |
A |
10: 115,259,353 (GRCm39) |
L1642M |
probably damaging |
Het |
|
| Other mutations in Lca5 |
| Allele | Source | Chr | Coord | Type | Predicted Effect | PPH Score |
|---|
|
IGL01073:Lca5
|
APN |
9 |
83,277,528 (GRCm39) |
missense |
probably damaging |
0.98 |
|
IGL01918:Lca5
|
APN |
9 |
83,305,201 (GRCm39) |
missense |
probably damaging |
1.00 |
|
IGL02035:Lca5
|
APN |
9 |
83,305,365 (GRCm39) |
missense |
probably damaging |
1.00 |
|
IGL02276:Lca5
|
APN |
9 |
83,280,638 (GRCm39) |
missense |
possibly damaging |
0.79 |
|
IGL02425:Lca5
|
APN |
9 |
83,281,774 (GRCm39) |
missense |
probably damaging |
1.00 |
|
IGL02481:Lca5
|
APN |
9 |
83,305,170 (GRCm39) |
missense |
probably damaging |
1.00 |
|
IGL02483:Lca5
|
APN |
9 |
83,305,170 (GRCm39) |
missense |
probably damaging |
1.00 |
|
R0465:Lca5
|
UTSW |
9 |
83,277,920 (GRCm39) |
nonsense |
probably null |
|
|
R0610:Lca5
|
UTSW |
9 |
83,281,792 (GRCm39) |
missense |
probably benign |
0.24 |
|
R0811:Lca5
|
UTSW |
9 |
83,281,806 (GRCm39) |
missense |
possibly damaging |
0.95 |
|
R0812:Lca5
|
UTSW |
9 |
83,281,806 (GRCm39) |
missense |
possibly damaging |
0.95 |
|
R0968:Lca5
|
UTSW |
9 |
83,305,222 (GRCm39) |
missense |
probably benign |
0.01 |
|
R1891:Lca5
|
UTSW |
9 |
83,277,661 (GRCm39) |
missense |
probably damaging |
1.00 |
|
R5223:Lca5
|
UTSW |
9 |
83,280,666 (GRCm39) |
missense |
probably benign |
0.00 |
|
R5235:Lca5
|
UTSW |
9 |
83,305,107 (GRCm39) |
nonsense |
probably null |
|
|
R5260:Lca5
|
UTSW |
9 |
83,305,276 (GRCm39) |
missense |
probably damaging |
0.98 |
|
R5531:Lca5
|
UTSW |
9 |
83,280,648 (GRCm39) |
missense |
probably benign |
0.00 |
|
R5558:Lca5
|
UTSW |
9 |
83,283,796 (GRCm39) |
missense |
probably damaging |
0.99 |
|
R5688:Lca5
|
UTSW |
9 |
83,280,619 (GRCm39) |
missense |
probably benign |
0.01 |
|
R5886:Lca5
|
UTSW |
9 |
83,281,734 (GRCm39) |
missense |
probably benign |
0.31 |
|
R6426:Lca5
|
UTSW |
9 |
83,277,707 (GRCm39) |
nonsense |
probably null |
|
|
R7108:Lca5
|
UTSW |
9 |
83,305,222 (GRCm39) |
missense |
probably benign |
0.25 |
|
R7151:Lca5
|
UTSW |
9 |
83,280,693 (GRCm39) |
missense |
probably benign |
0.20 |
|
R7314:Lca5
|
UTSW |
9 |
83,277,563 (GRCm39) |
missense |
possibly damaging |
0.86 |
|
R7378:Lca5
|
UTSW |
9 |
83,277,583 (GRCm39) |
missense |
probably benign |
0.00 |
|
R7468:Lca5
|
UTSW |
9 |
83,305,509 (GRCm39) |
missense |
probably damaging |
0.99 |
|
R7686:Lca5
|
UTSW |
9 |
83,277,292 (GRCm39) |
missense |
probably benign |
0.00 |
|
R8874:Lca5
|
UTSW |
9 |
83,277,503 (GRCm39) |
missense |
probably damaging |
1.00 |
|
R8934:Lca5
|
UTSW |
9 |
83,273,909 (GRCm39) |
utr 3 prime |
probably benign |
|
|
R8987:Lca5
|
UTSW |
9 |
83,283,796 (GRCm39) |
missense |
probably damaging |
1.00 |
|
| Posted On |
2013-10-07 |
Incidental Mutation