Incidental Mutation 'R5892:P4ha2'
| ID |
502024 |
| Institutional Source |
Beutler Lab
|
| Gene Symbol |
P4ha2
|
| Ensembl Gene |
ENSMUSG00000018906 |
| Gene Name |
procollagen-proline, 2-oxoglutarate 4-dioxygenase (proline 4-hydroxylase), alpha II polypeptide |
| Synonyms |
P4hl |
| MMRRC Submission |
044093-MU
|
| Accession Numbers |
|
| Essential gene? |
Possibly non essential
(E-score: 0.361)
|
| Stock # |
R5892 (G1)
|
| Quality Score |
65 |
|
Status
|
Validated
|
| Chromosome |
11 |
| Chromosomal Location |
53991750-54022494 bp(+) (GRCm39) |
| Type of Mutation |
missense |
| DNA Base Change (assembly) |
A to G
at 54011014 bp (GRCm39)
|
| Zygosity |
Heterozygous |
| Amino Acid Change |
Tyrosine to Cysteine
at position 343
(Y343C)
|
| Ref Sequence |
ENSEMBL: ENSMUSP00000133275
(fasta)
|
| Gene Model |
predicted gene model for transcript(s):
[ENSMUST00000019050]
[ENSMUST00000093107]
[ENSMUST00000141258]
[ENSMUST00000174616]
|
| AlphaFold |
no structure available at present |
| Predicted Effect |
probably damaging
Transcript: ENSMUST00000019050
AA Change: Y343C
PolyPhen 2
Score 0.997 (Sensitivity: 0.41; Specificity: 0.98)
|
| SMART Domains |
Protein: ENSMUSP00000019050
Gene: ENSMUSG00000018906
AA Change: Y343C
| Domain | Start | End | E-Value | Type |
|---|
|
signal peptide
|
1 |
19 |
N/A |
INTRINSIC |
|
Pfam:P4Ha_N
|
28 |
159 |
2.6e-40 |
PFAM |
|
SCOP:d1qqea_
|
171 |
258 |
1e-3 |
SMART |
|
Blast:P4Hc
|
232 |
303 |
4e-13 |
BLAST |
|
P4Hc
|
338 |
521 |
1.61e-67 |
SMART |
|
| Predicted Effect |
probably damaging
Transcript: ENSMUST00000093107
AA Change: Y343C
PolyPhen 2
Score 0.997 (Sensitivity: 0.41; Specificity: 0.98)
|
| SMART Domains |
Protein: ENSMUSP00000091749
Gene: ENSMUSG00000018906
AA Change: Y343C
| Domain | Start | End | E-Value | Type |
|---|
|
signal peptide
|
1 |
19 |
N/A |
INTRINSIC |
|
Pfam:P4Ha_N
|
27 |
160 |
6.3e-44 |
PFAM |
|
SCOP:d1qqea_
|
171 |
258 |
1e-3 |
SMART |
|
P4Hc
|
338 |
519 |
7.67e-65 |
SMART |
|
| Predicted Effect |
noncoding transcript
Transcript: ENSMUST00000125651
|
| Predicted Effect |
probably benign
Transcript: ENSMUST00000141258
|
| Predicted Effect |
noncoding transcript
Transcript: ENSMUST00000142583
|
| Predicted Effect |
probably damaging
Transcript: ENSMUST00000174616
AA Change: Y343C
PolyPhen 2
Score 0.997 (Sensitivity: 0.41; Specificity: 0.98)
|
| SMART Domains |
Protein: ENSMUSP00000133275
Gene: ENSMUSG00000018906
AA Change: Y343C
| Domain | Start | End | E-Value | Type |
|---|
|
signal peptide
|
1 |
19 |
N/A |
INTRINSIC |
|
Pfam:P4Ha_N
|
27 |
160 |
6.3e-44 |
PFAM |
|
SCOP:d1qqea_
|
171 |
258 |
1e-3 |
SMART |
|
P4Hc
|
338 |
519 |
7.67e-65 |
SMART |
|
| Meta Mutation Damage Score |
0.9536 |
| Coding Region Coverage |
- 1x: 99.9%
- 3x: 99.5%
- 10x: 97.6%
- 20x: 92.6%
|
| Validation Efficiency |
98% (56/57) |
| MGI Phenotype |
FUNCTION: [Summary is not available for the mouse gene. This summary is for the human ortholog.] This gene encodes a component of prolyl 4-hydroxylase, a key enzyme in collagen synthesis composed of two identical alpha subunits and two beta subunits. The encoded protein is one of several different types of alpha subunits and provides the major part of the catalytic site of the active enzyme. In collagen and related proteins, prolyl 4-hydroxylase catalyzes the formation of 4-hydroxyproline that is essential to the proper three-dimensional folding of newly synthesized procollagen chains. Alternatively spliced transcript variants encoding different isoforms have been described. [provided by RefSeq, Jul 2008]
|
| Allele List at MGI |
|
| Other mutations in this stock |
Total: 49 list
| Gene | Ref | Var | Chr/Loc | Mutation | Predicted Effect | Zygosity |
|---|
| 4930524J08Rik |
G |
T |
5: 100,127,124 (GRCm39) |
|
probably benign |
Het |
| Abcb11 |
C |
T |
2: 69,091,844 (GRCm39) |
A893T |
probably damaging |
Het |
| Adtrp |
A |
T |
13: 41,981,682 (GRCm39) |
N30K |
probably benign |
Het |
| Alms1 |
T |
A |
6: 85,597,885 (GRCm39) |
S904T |
probably damaging |
Het |
| Cep170 |
T |
A |
1: 176,582,953 (GRCm39) |
|
probably null |
Het |
| Cntnap3 |
A |
G |
13: 64,946,994 (GRCm39) |
V145A |
probably damaging |
Het |
| Dclre1a |
T |
C |
19: 56,535,572 (GRCm39) |
E4G |
probably benign |
Het |
| Depdc1a |
G |
C |
3: 159,232,306 (GRCm39) |
A686P |
probably damaging |
Het |
| Dnah7b |
T |
C |
1: 46,376,753 (GRCm39) |
|
probably null |
Het |
| Enox1 |
A |
G |
14: 77,723,457 (GRCm39) |
|
probably benign |
Het |
| Fam107b |
A |
G |
2: 3,779,601 (GRCm39) |
E268G |
probably damaging |
Het |
| Fer1l6 |
A |
G |
15: 58,435,917 (GRCm39) |
S437G |
probably benign |
Het |
| Flnb |
C |
A |
14: 7,907,183 (GRCm38) |
T1252K |
probably damaging |
Het |
| Fubp1 |
A |
G |
3: 151,923,951 (GRCm39) |
|
probably benign |
Het |
| Gm20402 |
G |
A |
3: 52,176,370 (GRCm39) |
A50T |
probably benign |
Het |
| Gpr137b |
T |
C |
13: 13,533,991 (GRCm39) |
Y355C |
|
Het |
| Gzmk |
C |
T |
13: 113,310,456 (GRCm39) |
|
probably null |
Het |
| Ino80 |
A |
T |
2: 119,270,028 (GRCm39) |
|
probably benign |
Het |
| Ints8 |
T |
C |
4: 11,223,813 (GRCm39) |
T677A |
probably damaging |
Het |
| Kat6a |
A |
G |
8: 23,428,305 (GRCm39) |
E1220G |
probably damaging |
Het |
| Lrfn5 |
A |
G |
12: 61,890,204 (GRCm39) |
T498A |
probably damaging |
Het |
| Lrp2 |
T |
A |
2: 69,273,120 (GRCm39) |
T4043S |
probably benign |
Het |
| Malrd1 |
A |
G |
2: 15,619,078 (GRCm39) |
N314S |
probably benign |
Het |
| Mfsd1 |
A |
G |
3: 67,497,162 (GRCm39) |
|
probably null |
Het |
| Muc1 |
C |
T |
3: 89,138,300 (GRCm39) |
P381S |
probably benign |
Het |
| Myh2 |
A |
T |
11: 67,076,002 (GRCm39) |
K730* |
probably null |
Het |
| Nat3 |
T |
A |
8: 68,000,590 (GRCm39) |
N156K |
probably benign |
Het |
| Nelfe |
T |
C |
17: 35,073,645 (GRCm39) |
|
probably benign |
Het |
| Nlrp1a |
A |
T |
11: 70,990,471 (GRCm39) |
L927Q |
probably damaging |
Het |
| Pclo |
A |
T |
5: 14,571,185 (GRCm39) |
Q190L |
probably damaging |
Het |
| Pde8a |
A |
G |
7: 80,945,439 (GRCm39) |
N183S |
probably damaging |
Het |
| Plekha2 |
C |
T |
8: 25,542,381 (GRCm39) |
V278I |
probably benign |
Het |
| Plekha6 |
G |
C |
1: 133,200,045 (GRCm39) |
R208P |
possibly damaging |
Het |
| Plxnb1 |
T |
C |
9: 108,940,775 (GRCm39) |
L1550P |
probably damaging |
Het |
| Ppox |
C |
T |
1: 171,105,034 (GRCm39) |
V385I |
probably damaging |
Het |
| Prdm16 |
T |
C |
4: 154,407,716 (GRCm39) |
D1170G |
possibly damaging |
Het |
| Prmt5 |
A |
T |
14: 54,747,368 (GRCm39) |
S470T |
probably damaging |
Het |
| Robo2 |
T |
A |
16: 73,692,668 (GRCm39) |
|
probably benign |
Het |
| Siglecg |
G |
A |
7: 43,061,628 (GRCm39) |
|
probably benign |
Het |
| Slc30a5 |
T |
C |
13: 100,949,810 (GRCm39) |
N367S |
probably damaging |
Het |
| Tex29 |
C |
T |
8: 11,904,288 (GRCm39) |
|
probably benign |
Het |
| Tmem117 |
T |
A |
15: 94,536,020 (GRCm39) |
V18E |
probably damaging |
Het |
| Tmtc2 |
C |
T |
10: 105,249,366 (GRCm39) |
M122I |
probably benign |
Het |
| Tpr |
T |
A |
1: 150,283,151 (GRCm39) |
N287K |
probably benign |
Het |
| Unc93b1 |
A |
T |
19: 3,993,632 (GRCm39) |
D358V |
probably damaging |
Het |
| Vrk2 |
A |
T |
11: 26,484,372 (GRCm39) |
|
probably benign |
Het |
| Wdr24 |
A |
T |
17: 26,046,960 (GRCm39) |
Q671L |
probably benign |
Het |
| Zfp110 |
C |
T |
7: 12,582,405 (GRCm39) |
T351I |
probably benign |
Het |
| Zfp963 |
T |
C |
8: 70,196,027 (GRCm39) |
D142G |
probably benign |
Het |
|
| Other mutations in P4ha2 |
| Allele | Source | Chr | Coord | Type | Predicted Effect | PPH Score |
|---|
|
IGL01101:P4ha2
|
APN |
11 |
54,010,131 (GRCm39) |
missense |
probably damaging |
1.00 |
|
IGL01324:P4ha2
|
APN |
11 |
54,010,984 (GRCm39) |
missense |
probably damaging |
0.99 |
|
IGL01953:P4ha2
|
APN |
11 |
54,004,996 (GRCm39) |
missense |
probably benign |
0.07 |
|
IGL02053:P4ha2
|
APN |
11 |
54,008,413 (GRCm39) |
missense |
probably benign |
|
|
FR4342:P4ha2
|
UTSW |
11 |
54,001,077 (GRCm39) |
small deletion |
probably benign |
|
|
R0471:P4ha2
|
UTSW |
11 |
54,008,434 (GRCm39) |
missense |
possibly damaging |
0.82 |
|
R0938:P4ha2
|
UTSW |
11 |
54,010,148 (GRCm39) |
missense |
possibly damaging |
0.67 |
|
R1467:P4ha2
|
UTSW |
11 |
53,997,236 (GRCm39) |
intron |
probably benign |
|
|
R1517:P4ha2
|
UTSW |
11 |
54,008,471 (GRCm39) |
missense |
probably benign |
|
|
R1556:P4ha2
|
UTSW |
11 |
54,015,836 (GRCm39) |
missense |
probably damaging |
0.98 |
|
R3498:P4ha2
|
UTSW |
11 |
54,010,079 (GRCm39) |
missense |
probably benign |
0.28 |
|
R3916:P4ha2
|
UTSW |
11 |
54,017,074 (GRCm39) |
missense |
probably benign |
0.07 |
|
R4853:P4ha2
|
UTSW |
11 |
54,010,996 (GRCm39) |
missense |
probably benign |
0.01 |
|
R4932:P4ha2
|
UTSW |
11 |
54,015,846 (GRCm39) |
missense |
probably benign |
0.05 |
|
R5020:P4ha2
|
UTSW |
11 |
54,022,016 (GRCm39) |
missense |
probably damaging |
1.00 |
|
R5975:P4ha2
|
UTSW |
11 |
54,017,238 (GRCm39) |
critical splice donor site |
probably null |
|
|
R6632:P4ha2
|
UTSW |
11 |
54,008,474 (GRCm39) |
missense |
probably benign |
0.07 |
|
R7023:P4ha2
|
UTSW |
11 |
54,022,072 (GRCm39) |
missense |
probably benign |
0.01 |
|
R7068:P4ha2
|
UTSW |
11 |
54,001,820 (GRCm39) |
missense |
probably benign |
0.03 |
|
R8963:P4ha2
|
UTSW |
11 |
54,004,995 (GRCm39) |
missense |
probably benign |
0.01 |
|
R9215:P4ha2
|
UTSW |
11 |
54,017,226 (GRCm39) |
missense |
probably benign |
0.27 |
|
R9224:P4ha2
|
UTSW |
11 |
54,009,963 (GRCm39) |
missense |
possibly damaging |
0.92 |
|
R9336:P4ha2
|
UTSW |
11 |
54,002,390 (GRCm39) |
missense |
possibly damaging |
0.67 |
|
R9582:P4ha2
|
UTSW |
11 |
54,022,065 (GRCm39) |
nonsense |
probably null |
|
|
RF001:P4ha2
|
UTSW |
11 |
54,001,061 (GRCm39) |
small deletion |
probably benign |
|
|
RF018:P4ha2
|
UTSW |
11 |
54,001,072 (GRCm39) |
frame shift |
probably null |
|
|
RF035:P4ha2
|
UTSW |
11 |
54,001,061 (GRCm39) |
small deletion |
probably benign |
|
|
RF043:P4ha2
|
UTSW |
11 |
54,001,076 (GRCm39) |
frame shift |
probably null |
|
|
| Predicted Primers |
PCR Primer
(F):5'- TGAGACCAGTGCATGCAGAC -3'
(R):5'- TCAGCCTAAGTCTGCAGCATG -3'
Sequencing Primer
(F):5'- AGTGCATGCAGACAGCCG -3'
(R):5'- GTCTGCAGCATGTCAAAGAACTCATG -3'
|
| Posted On |
2018-02-19 |
Incidental Mutation