chr4:105140377:C>A Detail (hg38)

Information

Genome

Assembly Position
hg19 chr4:106,061,534-106,061,534 View the variant detail on this assembly version.
hg38 chr4:105,140,377-105,140,377

HGVS

[No Data.]
Summary

MGeND

Clinical significance
Variant entry
GWAS entry
Disease area statistics Show details

Frequency

JP HGVD:[No Data.]
ToMMo:0.805
NCBN:[No Data.]
NCBN(Hondo):[No Data.]
NCBN(Ryukyu):[No Data.]
East asia ExAC:[No Data.]

Prediction

ClinVar

Clinical Significance
Review star [No Data.]
Show details
Links
Disease area statistics
[No Data.]
MGeND
[No Data.]
ClinVar
[No Data.]
CIViC
[No Data.]
DisGeNET
Score Disease name Description Source Pubmed Links
0.005 Malignant neoplasm of prostate SNP rs7679673, ~6.3kb upstream of TET2 and previously reported to be associated ... BeFree 24832084 Detail
<0.001 prostate carcinoma SNP rs7679673, ~6.3kb upstream of TET2 and previously reported to be associated ... BeFree 24832084 Detail
<0.001 Lymphoma, Non-Hodgkin In the pleiotropy analysis, six risk variants for other cancers were associated ... BeFree 24598796 Detail
0.003 Lymphoma, Non-Hodgkin In the pleiotropy analysis, six risk variants for other cancers were associated ... BeFree 24598796 Detail
<0.001 Lymphoma, Non-Hodgkin In the pleiotropy analysis, six risk variants for other cancers were associated ... BeFree 24598796 Detail
<0.001 Lymphoma, Large-Cell, Follicular In the pleiotropy analysis, six risk variants for other cancers were associated ... BeFree 24598796 Detail
<0.001 Lymphoma, Large-Cell, Follicular In the pleiotropy analysis, six risk variants for other cancers were associated ... BeFree 24598796 Detail
<0.001 Lymphoma, Large-Cell, Follicular In the pleiotropy analysis, six risk variants for other cancers were associated ... BeFree 24598796 Detail
<0.001 Lymphoma, Non-Hodgkin In the pleiotropy analysis, six risk variants for other cancers were associated ... BeFree 24598796 Detail
<0.001 Lymphoma, Large-Cell, Follicular In the pleiotropy analysis, six risk variants for other cancers were associated ... BeFree 24598796 Detail
<0.001 Lymphoma, Large-Cell, Follicular In the pleiotropy analysis, six risk variants for other cancers were associated ... BeFree 24598796 Detail
<0.001 Lymphoma, Non-Hodgkin In the pleiotropy analysis, six risk variants for other cancers were associated ... BeFree 24598796 Detail
Annotation

Annotations

DescrptionSourceLinks
SNP rs7679673, ~6.3kb upstream of TET2 and previously reported to be associated with prostate cancer... DisGeNET Detail
SNP rs7679673, ~6.3kb upstream of TET2 and previously reported to be associated with prostate cancer... DisGeNET Detail
In the pleiotropy analysis, six risk variants for other cancers were associated with NHL risk, inclu... DisGeNET Detail
In the pleiotropy analysis, six risk variants for other cancers were associated with NHL risk, inclu... DisGeNET Detail
In the pleiotropy analysis, six risk variants for other cancers were associated with NHL risk, inclu... DisGeNET Detail
In the pleiotropy analysis, six risk variants for other cancers were associated with NHL risk, inclu... DisGeNET Detail
In the pleiotropy analysis, six risk variants for other cancers were associated with NHL risk, inclu... DisGeNET Detail
In the pleiotropy analysis, six risk variants for other cancers were associated with NHL risk, inclu... DisGeNET Detail
In the pleiotropy analysis, six risk variants for other cancers were associated with NHL risk, inclu... DisGeNET Detail
In the pleiotropy analysis, six risk variants for other cancers were associated with NHL risk, inclu... DisGeNET Detail
In the pleiotropy analysis, six risk variants for other cancers were associated with NHL risk, inclu... DisGeNET Detail
In the pleiotropy analysis, six risk variants for other cancers were associated with NHL risk, inclu... DisGeNET Detail
Gene
-
dbSNP
rs7679673 dbSNP
Genome
hg38
Position
chr4:105,140,377-105,140,377
Variant Type
snv
Reference Allele
C
Alternative Allele
A
ToMMo VCF FILTER column value (ToMMo 8.3KJPN Allele Frequency Panel(v20200831))
PASS
Total VCF ID column value (ToMMo 8.3KJPN Allele Frequency Panel(v20200831))
rs7679673
Allele frequency, for each ALT allele (ToMMo 8.3KJPN Allele Frequency Panel(v20200831))
0.8054
Allele count in genotypes, for each ALT allele (ToMMo 8.3KJPN Allele Frequency Panel(v20200831))
13498
Total number of alleles in called genotypes (ToMMo 8.3KJPN Allele Frequency Panel(v20200831))
16760
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