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Table 2 Pathogenic variants with inconsistent clinical correlation

From: Applying next generation sequencing with microdroplet PCR to determine the disease-causing mutations in retinal dystrophies

Sample ID

Clincial Diagnosis

Family Inheritance

Candidate Gene(s)

Transcript

Nucleotide Change

Amino Acid Change

Genotypes (Sanger confirmed)

HGMD or dbSNP IDs

References (or in silico Analysis)

RD1–12

CRD

Sporadic

C2orf71

NM_001029883.2

c.1514G > A

p.W505*

Heterozygous

CM1511740

 

[15]

   

C2orf71

 

c.3266dup

p.S1090Ifs*17

Heterozygous

Novel

(predicted as pathogenic

 
   

BBS4

NM_033028.4

c.1375C > T

p.Q459*

Heterozygous

Novel

(predicted as pathogenic)

 
   

TYRP1

NM_000550.2

c.1557 T > G

p.Y519*

Heterozygous

CM135790/rs41302073

 

[41]

   

GUCA1A

NM_000409.3

c.149C > T

p.P50L

Heterozygous

CM012969/rs104893968

 

[13]

RD11–05

RP

Sporadic

GUCA1A

NM_000409.3

c.149C > T

p.P50L

Heterozygous

CM012969/rs104893968

 

[13]

RD14–05

RP

Sporadic

TRPM1

NM_002420.5

c.1192 T > C

p.W398R

Heterozygous

Novel

(predicted as pathogenic)

 
   

TRPM1

 

c.3914G > A

p.R1305H

Heterozygous

rs13380059

(predicted as unlikely pathogenic

 

RD11–06

RP

Sporadic

GUCY2D

NM_000180.3

c.1724C > T

p.P575L

Heterozygous

CM023932/rs28743021

 

[14]

   

TYR

NM_000372.4

c.1217C > T

p.P406L

Heterozygous

CM910385/rs104894313

 

[42]

   

TYRP1

NM_000550.2

c.1261 + 1G > A

IVS9 + 1G > A

Heterozygous

rs140365820

(predicted as pathogenic)

 

Insufficient for clinical correlation

RD4–05

RP

Sporadic

EYS

NM_001142800.1

c.6138G > A

p.W2046*

Heterozygous

Novel

(predicted as pathogenic)

 

RD11–02

RP

Sporadic

EYS

NM_001142800.1

c.5677_5681del

p.Y1893Rfs*12

Heterozygous

Novel

(predicted as pathogenic)

 

RD4–03

RP

Sporadic

FLVCR1

NM_014053.3

c.1546C > T

p.R516*

Heterozygous

rs538343832

(pathogenic but likely incidental)

 

RD14–03

RP

sporadic

ABCA4

NM_000350.2

c.5714 + 5G > A

IVS40 + 5G > A

Heterozygous

CS982057

 

[43]

   

USH2A

NM_206933.2

c.8600C > T

p.S2867 L

Heterozygous

rs145468090

(predicted as pathogenic)

 
   

USH2A

 

c.10552G > A

p.V3518I

Heterozygous

rs75397806

(predicted as unlikely pathogenic)

 

RD15–01

RP

Autosomal recessive

ABCA4

NM_000350.2

c.4685 T > C

p.I1562T

Heterozygous

CM970013

 

[44]

   

RPGRIP1

NM_020366.3

c.1753C > T

p.P585S

Heterozygous

CM111852

 

[45]

   

LRP5

NM_002335.3

c.4574C > T

p.A1525V

Heterozygous

CM078457

 

[46]

RD6–06

RP

sporadic

CNGB1

NM_001297.4

c.2957A > T

p.N986I

Heterozygous

CM111413/rs201162411

(predicted as likely pathogenic)

 
   

MYO7A

NM_000260.3

c.1132C > T

p.R378C

Heterozygous

rs199818783

(predicted as likely pathogenic)

 

RD6–02

RP

Sporadic

RIMS1

NM_014989.5

c.3027 T > C

p.=

Heterozygous

Novel

(predicted as affecting splicing)

 
   

LCA5

NM_181714.3

c.2050G > C

p.A684P

Heterozygous

rs745875716

(predicted as unlikely pathogenic)

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