Incidental Mutation 'R6014:Pcdhb3'
| ID |
479946 |
| Institutional Source |
Beutler Lab
|
| Gene Symbol |
Pcdhb3
|
| Ensembl Gene |
ENSMUSG00000045498 |
| Gene Name |
protocadherin beta 3 |
| Synonyms |
PcdhbC |
| MMRRC Submission |
044190-MU
|
| Accession Numbers |
|
| Essential gene? |
Probably non essential
(E-score: 0.064)
|
| Stock # |
R6014 (G1)
|
| Quality Score |
225.009 |
|
Status
|
Validated
|
| Chromosome |
18 |
| Chromosomal Location |
37433852-37437638 bp(+) (GRCm39) |
| Type of Mutation |
missense |
| DNA Base Change (assembly) |
T to A
at 37435706 bp (GRCm39)
|
| Zygosity |
Heterozygous |
| Amino Acid Change |
Asparagine to Lysine
at position 557
(N557K)
|
| Ref Sequence |
ENSEMBL: ENSMUSP00000059180
(fasta)
|
| Gene Model |
predicted gene model for transcript(s):
[ENSMUST00000051754]
[ENSMUST00000056712]
[ENSMUST00000115661]
[ENSMUST00000194544]
|
| AlphaFold |
Q91XZ7 |
| Predicted Effect |
probably damaging
Transcript: ENSMUST00000051754
AA Change: N557K
PolyPhen 2
Score 1.000 (Sensitivity: 0.00; Specificity: 1.00)
|
| SMART Domains |
Protein: ENSMUSP00000059180
Gene: ENSMUSG00000045498
AA Change: N557K
| Domain | Start | End | E-Value | Type |
|---|
|
low complexity region
|
14 |
28 |
N/A |
INTRINSIC |
|
CA
|
44 |
131 |
6.29e-1 |
SMART |
|
CA
|
155 |
240 |
7.16e-21 |
SMART |
|
CA
|
264 |
345 |
1.22e-23 |
SMART |
|
CA
|
368 |
449 |
2.86e-20 |
SMART |
|
CA
|
473 |
559 |
2.55e-26 |
SMART |
|
CA
|
589 |
670 |
1.11e-8 |
SMART |
|
Pfam:Cadherin_C_2
|
687 |
770 |
9.9e-25 |
PFAM |
|
| Predicted Effect |
probably benign
Transcript: ENSMUST00000056712
|
| SMART Domains |
Protein: ENSMUSP00000059770
Gene: ENSMUSG00000045689
| Domain | Start | End | E-Value | Type |
|---|
|
CA
|
54 |
131 |
1.66e0 |
SMART |
|
CA
|
155 |
240 |
1.07e-19 |
SMART |
|
CA
|
264 |
344 |
6.03e-28 |
SMART |
|
CA
|
367 |
448 |
2.57e-22 |
SMART |
|
CA
|
472 |
558 |
3.36e-26 |
SMART |
|
CA
|
588 |
669 |
3.48e-10 |
SMART |
|
Pfam:Cadherin_C_2
|
685 |
768 |
1e-25 |
PFAM |
|
| Predicted Effect |
probably benign
Transcript: ENSMUST00000115661
|
| SMART Domains |
Protein: ENSMUSP00000111325
Gene: ENSMUSG00000103458
| Domain | Start | End | E-Value | Type |
|---|
|
CA
|
20 |
131 |
5.3e-2 |
SMART |
|
CA
|
155 |
240 |
1.51e-19 |
SMART |
|
CA
|
264 |
348 |
7.6e-25 |
SMART |
|
CA
|
372 |
453 |
1.42e-24 |
SMART |
|
CA
|
477 |
563 |
1.42e-24 |
SMART |
|
CA
|
594 |
674 |
4.12e-12 |
SMART |
|
low complexity region
|
706 |
721 |
N/A |
INTRINSIC |
|
Pfam:Cadherin_tail
|
796 |
930 |
3.9e-58 |
PFAM |
|
| Predicted Effect |
noncoding transcript
Transcript: ENSMUST00000193025
|
| Predicted Effect |
probably benign
Transcript: ENSMUST00000193984
|
| Predicted Effect |
probably benign
Transcript: ENSMUST00000194544
|
| SMART Domains |
Protein: ENSMUSP00000141847
Gene: ENSMUSG00000102836
| Domain | Start | End | E-Value | Type |
|---|
|
Blast:CA
|
18 |
66 |
5e-20 |
BLAST |
|
| Meta Mutation Damage Score |
0.6467 |
| Coding Region Coverage |
- 1x: 99.9%
- 3x: 99.5%
- 10x: 97.8%
- 20x: 93.3%
|
| Validation Efficiency |
100% (67/67) |
| MGI Phenotype |
FUNCTION: [Summary is not available for the mouse gene. This summary is for the human ortholog.] This gene is a member of the protocadherin beta gene cluster, one of three related gene clusters tandemly linked on chromosome five. The gene clusters demonstrate an unusual genomic organization similar to that of B-cell and T-cell receptor gene clusters. The beta cluster contains 16 genes and 3 pseudogenes, each encoding 6 extracellular cadherin domains and a cytoplasmic tail that deviates from others in the cadherin superfamily. The extracellular domains interact in a homophilic manner to specify differential cell-cell connections. Unlike the alpha and gamma clusters, the transcripts from these genes are made up of only one large exon, not sharing common 3' exons as expected. These neural cadherin-like cell adhesion proteins are integral plasma membrane proteins. Their specific functions are unknown but they most likely play a critical role in the establishment and function of specific cell-cell neural connections. [provided by RefSeq, Jul 2008]
|
| Allele List at MGI |
|
| Other mutations in this stock |
Total: 67 list
| Gene | Ref | Var | Chr/Loc | Mutation | Predicted Effect | Zygosity |
|---|
| 4930568D16Rik |
A |
T |
2: 35,244,881 (GRCm39) |
M157K |
probably benign |
Het |
| A2ml1 |
C |
T |
6: 128,548,948 (GRCm39) |
C278Y |
probably damaging |
Het |
| Abcc2 |
A |
T |
19: 43,815,174 (GRCm39) |
Q1187L |
probably benign |
Het |
| Adcy9 |
A |
T |
16: 4,236,683 (GRCm39) |
Y6N |
probably damaging |
Het |
| Adh1 |
T |
C |
3: 137,992,559 (GRCm39) |
I225T |
probably benign |
Het |
| Akap11 |
A |
T |
14: 78,749,939 (GRCm39) |
I816K |
probably benign |
Het |
| Ap1b1 |
T |
A |
11: 4,969,364 (GRCm39) |
M240K |
possibly damaging |
Het |
| Apex1 |
A |
T |
14: 51,162,982 (GRCm39) |
T17S |
probably benign |
Het |
| Arhgap21 |
C |
T |
2: 20,886,616 (GRCm39) |
G26D |
probably damaging |
Het |
| Bahcc1 |
A |
G |
11: 120,180,615 (GRCm39) |
Y2613C |
probably benign |
Het |
| Baz1b |
C |
T |
5: 135,246,248 (GRCm39) |
R566W |
probably damaging |
Het |
| Casp8ap2 |
A |
T |
4: 32,641,400 (GRCm39) |
Y818F |
probably damaging |
Het |
| Col3a1 |
T |
A |
1: 45,360,739 (GRCm39) |
C56* |
probably null |
Het |
| Coro2a |
G |
A |
4: 46,542,261 (GRCm39) |
P371S |
probably damaging |
Het |
| Cyp2a22 |
T |
A |
7: 26,638,605 (GRCm39) |
|
probably null |
Het |
| Dpysl3 |
T |
A |
18: 43,494,132 (GRCm39) |
I183F |
probably damaging |
Het |
| Drc1 |
A |
T |
5: 30,502,993 (GRCm39) |
N172I |
probably damaging |
Het |
| Dst |
T |
C |
1: 34,303,915 (GRCm39) |
Y1378H |
probably damaging |
Het |
| Dync2i2 |
C |
T |
2: 29,921,763 (GRCm39) |
A533T |
probably benign |
Het |
| Eml2 |
G |
A |
7: 18,935,088 (GRCm39) |
V432I |
probably damaging |
Het |
| Epb41l3 |
A |
T |
17: 69,590,955 (GRCm39) |
T91S |
probably damaging |
Het |
| Exoc4 |
T |
C |
6: 33,452,932 (GRCm39) |
V474A |
probably benign |
Het |
| Fam229b |
G |
A |
10: 38,994,989 (GRCm39) |
T56I |
probably damaging |
Het |
| Gfm2 |
A |
G |
13: 97,288,169 (GRCm39) |
|
probably null |
Het |
| Git2 |
C |
T |
5: 114,871,938 (GRCm39) |
E152K |
probably benign |
Het |
| Golt1b |
T |
A |
6: 142,341,943 (GRCm39) |
I109N |
probably damaging |
Het |
| Grid2ip |
T |
A |
5: 143,373,578 (GRCm39) |
M783K |
possibly damaging |
Het |
| Inpp5a |
A |
G |
7: 139,154,898 (GRCm39) |
Y339C |
probably damaging |
Het |
| Isoc2a |
T |
C |
7: 4,894,625 (GRCm39) |
S103P |
probably damaging |
Het |
| Itih4 |
C |
A |
14: 30,614,586 (GRCm39) |
Q483K |
probably benign |
Het |
| Kansl2 |
A |
G |
15: 98,418,197 (GRCm39) |
|
probably null |
Het |
| Kdm5d |
G |
A |
Y: 921,528 (GRCm39) |
A509T |
probably benign |
Het |
| Krt13 |
A |
T |
11: 100,008,437 (GRCm39) |
D433E |
unknown |
Het |
| Lat2 |
C |
T |
5: 134,632,308 (GRCm39) |
V142M |
probably damaging |
Het |
| Lemd1 |
A |
C |
1: 132,184,463 (GRCm39) |
*102S |
probably null |
Het |
| Lrfn2 |
T |
C |
17: 49,376,934 (GRCm39) |
L5P |
possibly damaging |
Het |
| Lrrc4c |
T |
G |
2: 97,459,557 (GRCm39) |
|
probably null |
Het |
| Lypla1 |
T |
A |
1: 4,878,594 (GRCm39) |
|
probably null |
Het |
| Magi2 |
G |
A |
5: 20,816,091 (GRCm39) |
G744R |
probably damaging |
Het |
| Myh14 |
T |
A |
7: 44,274,502 (GRCm39) |
E948V |
probably null |
Het |
| Myo5a |
C |
A |
9: 75,074,489 (GRCm39) |
Y799* |
probably null |
Het |
| Nacc1 |
A |
C |
8: 85,401,700 (GRCm39) |
M371R |
possibly damaging |
Het |
| Nlrp5 |
T |
G |
7: 23,109,372 (GRCm39) |
M106R |
probably benign |
Het |
| Oas1h |
C |
T |
5: 121,005,229 (GRCm39) |
H226Y |
possibly damaging |
Het |
| Obscn |
A |
C |
11: 58,929,690 (GRCm39) |
I5175R |
probably damaging |
Het |
| Pcdh7 |
T |
A |
5: 57,878,497 (GRCm39) |
I684N |
probably damaging |
Het |
| Pde3b |
T |
C |
7: 114,015,675 (GRCm39) |
L297S |
probably damaging |
Het |
| Pigv |
G |
T |
4: 133,392,740 (GRCm39) |
H143Q |
probably benign |
Het |
| Ptk2 |
T |
G |
15: 73,176,293 (GRCm39) |
Y251S |
possibly damaging |
Het |
| Ralgds |
A |
G |
2: 28,433,673 (GRCm39) |
N219S |
probably damaging |
Het |
| Sardh |
C |
A |
2: 27,087,540 (GRCm39) |
|
probably null |
Het |
| Serpina3b |
A |
T |
12: 104,097,356 (GRCm39) |
K212N |
possibly damaging |
Het |
| Sh3bp2 |
A |
G |
5: 34,716,971 (GRCm39) |
N461D |
probably benign |
Het |
| Shisa2 |
A |
T |
14: 59,867,357 (GRCm39) |
Q203L |
probably damaging |
Het |
| Shmt1 |
C |
A |
11: 60,688,383 (GRCm39) |
G255V |
probably damaging |
Het |
| Socs1 |
T |
A |
16: 10,602,357 (GRCm39) |
I127F |
possibly damaging |
Het |
| Srcap |
A |
T |
7: 127,137,922 (GRCm39) |
T1091S |
probably benign |
Het |
| Syt14 |
A |
G |
1: 192,613,003 (GRCm39) |
I599T |
probably damaging |
Het |
| Tep1 |
A |
T |
14: 51,084,457 (GRCm39) |
N907K |
probably benign |
Het |
| Themis2 |
A |
G |
4: 132,513,291 (GRCm39) |
Y312H |
probably benign |
Het |
| Tubgcp5 |
T |
G |
7: 55,473,357 (GRCm39) |
S812A |
probably benign |
Het |
| Ush2a |
A |
T |
1: 188,582,237 (GRCm39) |
I3767F |
probably damaging |
Het |
| Usp40 |
T |
A |
1: 87,907,738 (GRCm39) |
E626V |
probably damaging |
Het |
| Utrn |
T |
C |
10: 12,566,620 (GRCm39) |
R1181G |
probably benign |
Het |
| Vmn2r117 |
T |
A |
17: 23,698,535 (GRCm39) |
I13F |
probably damaging |
Het |
| Wdr48 |
G |
T |
9: 119,753,775 (GRCm39) |
V646F |
probably damaging |
Het |
| Wdr64 |
T |
C |
1: 175,633,556 (GRCm39) |
F936L |
possibly damaging |
Het |
|
| Other mutations in Pcdhb3 |
| Allele | Source | Chr | Coord | Type | Predicted Effect | PPH Score |
|---|
|
IGL00976:Pcdhb3
|
APN |
18 |
37,436,001 (GRCm39) |
missense |
probably benign |
0.12 |
|
IGL01568:Pcdhb3
|
APN |
18 |
37,435,054 (GRCm39) |
missense |
possibly damaging |
0.74 |
|
IGL02541:Pcdhb3
|
APN |
18 |
37,435,198 (GRCm39) |
missense |
probably damaging |
0.99 |
|
IGL02852:Pcdhb3
|
APN |
18 |
37,435,150 (GRCm39) |
missense |
probably damaging |
1.00 |
|
IGL03140:Pcdhb3
|
APN |
18 |
37,434,272 (GRCm39) |
missense |
probably benign |
0.00 |
|
IGL03336:Pcdhb3
|
APN |
18 |
37,436,014 (GRCm39) |
missense |
possibly damaging |
0.86 |
|
R0380:Pcdhb3
|
UTSW |
18 |
37,435,210 (GRCm39) |
missense |
possibly damaging |
0.48 |
|
R1558:Pcdhb3
|
UTSW |
18 |
37,434,634 (GRCm39) |
missense |
probably damaging |
1.00 |
|
R1713:Pcdhb3
|
UTSW |
18 |
37,436,375 (GRCm39) |
missense |
probably benign |
|
|
R1728:Pcdhb3
|
UTSW |
18 |
37,434,931 (GRCm39) |
missense |
probably damaging |
1.00 |
|
R1784:Pcdhb3
|
UTSW |
18 |
37,434,931 (GRCm39) |
missense |
probably damaging |
1.00 |
|
R1838:Pcdhb3
|
UTSW |
18 |
37,434,370 (GRCm39) |
missense |
probably benign |
0.00 |
|
R2079:Pcdhb3
|
UTSW |
18 |
37,436,362 (GRCm39) |
missense |
possibly damaging |
0.93 |
|
R2164:Pcdhb3
|
UTSW |
18 |
37,435,239 (GRCm39) |
missense |
possibly damaging |
0.78 |
|
R2513:Pcdhb3
|
UTSW |
18 |
37,434,294 (GRCm39) |
missense |
probably benign |
0.17 |
|
R2513:Pcdhb3
|
UTSW |
18 |
37,434,292 (GRCm39) |
nonsense |
probably null |
|
|
R2513:Pcdhb3
|
UTSW |
18 |
37,434,293 (GRCm39) |
missense |
probably damaging |
1.00 |
|
R3080:Pcdhb3
|
UTSW |
18 |
37,434,535 (GRCm39) |
missense |
probably damaging |
1.00 |
|
R3755:Pcdhb3
|
UTSW |
18 |
37,435,878 (GRCm39) |
missense |
probably damaging |
0.97 |
|
R3756:Pcdhb3
|
UTSW |
18 |
37,435,878 (GRCm39) |
missense |
probably damaging |
0.97 |
|
R3862:Pcdhb3
|
UTSW |
18 |
37,436,329 (GRCm39) |
missense |
probably damaging |
1.00 |
|
R3863:Pcdhb3
|
UTSW |
18 |
37,436,329 (GRCm39) |
missense |
probably damaging |
1.00 |
|
R3864:Pcdhb3
|
UTSW |
18 |
37,436,329 (GRCm39) |
missense |
probably damaging |
1.00 |
|
R4114:Pcdhb3
|
UTSW |
18 |
37,435,093 (GRCm39) |
missense |
probably benign |
0.03 |
|
R4895:Pcdhb3
|
UTSW |
18 |
37,434,759 (GRCm39) |
missense |
probably damaging |
1.00 |
|
R4917:Pcdhb3
|
UTSW |
18 |
37,435,452 (GRCm39) |
missense |
probably damaging |
0.99 |
|
R5508:Pcdhb3
|
UTSW |
18 |
37,434,179 (GRCm39) |
missense |
probably damaging |
1.00 |
|
R5779:Pcdhb3
|
UTSW |
18 |
37,434,520 (GRCm39) |
missense |
probably benign |
0.26 |
|
R5848:Pcdhb3
|
UTSW |
18 |
37,434,700 (GRCm39) |
missense |
probably benign |
0.39 |
|
R5991:Pcdhb3
|
UTSW |
18 |
37,434,561 (GRCm39) |
missense |
probably benign |
0.07 |
|
R6111:Pcdhb3
|
UTSW |
18 |
37,435,242 (GRCm39) |
missense |
probably benign |
0.00 |
|
R6282:Pcdhb3
|
UTSW |
18 |
37,434,699 (GRCm39) |
missense |
probably damaging |
1.00 |
|
R6339:Pcdhb3
|
UTSW |
18 |
37,433,998 (GRCm39) |
intron |
probably benign |
|
|
R6425:Pcdhb3
|
UTSW |
18 |
37,435,528 (GRCm39) |
missense |
possibly damaging |
0.64 |
|
R6860:Pcdhb3
|
UTSW |
18 |
37,434,763 (GRCm39) |
missense |
probably benign |
0.01 |
|
R6896:Pcdhb3
|
UTSW |
18 |
37,434,265 (GRCm39) |
missense |
probably damaging |
1.00 |
|
R6946:Pcdhb3
|
UTSW |
18 |
37,435,672 (GRCm39) |
missense |
probably damaging |
1.00 |
|
R7110:Pcdhb3
|
UTSW |
18 |
37,435,975 (GRCm39) |
missense |
possibly damaging |
0.87 |
|
R7236:Pcdhb3
|
UTSW |
18 |
37,434,505 (GRCm39) |
missense |
probably damaging |
1.00 |
|
R7402:Pcdhb3
|
UTSW |
18 |
37,434,657 (GRCm39) |
missense |
probably benign |
|
|
R7469:Pcdhb3
|
UTSW |
18 |
37,434,388 (GRCm39) |
missense |
probably benign |
0.02 |
|
R7723:Pcdhb3
|
UTSW |
18 |
37,435,565 (GRCm39) |
missense |
probably damaging |
0.98 |
|
R7738:Pcdhb3
|
UTSW |
18 |
37,436,012 (GRCm39) |
missense |
probably benign |
0.00 |
|
R7800:Pcdhb3
|
UTSW |
18 |
37,434,974 (GRCm39) |
missense |
probably benign |
0.00 |
|
R7817:Pcdhb3
|
UTSW |
18 |
37,435,982 (GRCm39) |
missense |
probably benign |
|
|
R8157:Pcdhb3
|
UTSW |
18 |
37,436,292 (GRCm39) |
missense |
probably damaging |
1.00 |
|
R9264:Pcdhb3
|
UTSW |
18 |
37,435,166 (GRCm39) |
missense |
probably benign |
0.03 |
|
R9482:Pcdhb3
|
UTSW |
18 |
37,434,736 (GRCm39) |
missense |
probably damaging |
1.00 |
|
R9488:Pcdhb3
|
UTSW |
18 |
37,435,416 (GRCm39) |
missense |
possibly damaging |
0.62 |
|
X0026:Pcdhb3
|
UTSW |
18 |
37,434,817 (GRCm39) |
missense |
probably damaging |
0.96 |
|
X0066:Pcdhb3
|
UTSW |
18 |
37,435,392 (GRCm39) |
nonsense |
probably null |
|
|
Z1177:Pcdhb3
|
UTSW |
18 |
37,435,089 (GRCm39) |
missense |
probably benign |
0.00 |
|
| Predicted Primers |
PCR Primer
(F):5'- ACATCACCTACTCGCTGCTG -3'
(R):5'- TCCTTGACCAGTAGCAGCAG -3'
Sequencing Primer
(F):5'- ACAGCTGGCCCTCGATTCAC -3'
(R):5'- GCATATCGCGCTCACTCAG -3'
|
| Posted On |
2017-06-26 |
Incidental Mutation