• T-REx Database

Variant location (GRCh37) chr14:65234066

  • Variant class : SNV
  • Alleles : T/C
  • Existing ID : rs1235889026
  • Quality score : 8848.94
  • Filter : PASS

Annotations

Consequence Impact Gene HGVSg HGVSc HGVSp cDNA position CDS position Protein position Codons Amino acids SIFT score PolyPhen score
missense_variant MODERATE SPTB chr14:g.65234066T>C NM_001024858.2:c.6224A>G NP_001020029.1:p.Glu2075Gly 6278/10064 6224/6987 2075/2328 gAg/gGg E/G deleterious(0) possibly_damaging(0.8)

Allele frequencies

Subpopulation Allele count Allele number Allele frequency
Group A 0 228 C:0.000e+00
Group B 0 170 C:0.000e+00
Group C 1 588 C:0.002
Group D 4 872 C:0.005
Group E 3 198 C:0.015
Group X 0 128 C:0.000e+00
All Thais 8 2184 C:0.004

Other Population frequencies from gnomAD

  • Exomes
  • Genomes
Population Allele Count Allele Number Number of Homozygotes Allele Frequency
African 0 16252 0 0.0
Ashkenazi Jewish 0 10080 0 0.0
European (non-Finnish)
Southern European 0 11502 0 0.0
North-western European 0 42212 0 0.0
Bulgarian 0 2670 0 0.0
East Asian 0 18392 0 0.0
Japanese 0 152 0 0.0
Korean 0 3818 0 0.0
Other East Asian 0 18392 0 0.0
European (Finnish) 0 21532 0 0.0
South Asian 0 30616 0 0.0
Other 0 6138 0 0.0
Population Allele Count Allele Number Number of Homozygotes Allele Frequency
African
Ashkenazi Jewish
European (non-Finnish)
Southern European
North-western European
Bulgarian
East Asian
Japanese
Korean
Other East Asian
European (Finish)
South Asian
Other


Genotype Quality Metrics

  • Genotype quality
  • Depth
  • Allele balance for heterozygotes

Site Quality Metrics

Metric
BaseQRankSum -2.482
ClippingRankSum 0.000
DP 40833
FS 0.550
InbreedingCoeff -0.004
MQ 60.000
MQRankSum 0.000
QD 13.010
ReadPosRankSum 0.619
SiteQuality 8848.94
SOR 0.619
VQSLOD 6.500


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