Variant report

Variant	rs9497398
Chromosome Location	chr6:146031104-146031105
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 144 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:143)

rs_ID	r²[population]
rs1004752	0.87[EUR][1000 genomes]
rs1011596	0.82[EUR][1000 genomes]
rs1011597	0.83[EUR][1000 genomes]
rs10214925	0.88[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs10447449	0.85[EUR][1000 genomes]
rs1055212	0.90[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs1070517	0.83[EUR][1000 genomes]
rs1070519	0.84[EUR][1000 genomes]
rs1070520	0.81[EUR][1000 genomes]
rs10872580	0.85[EUR][1000 genomes]
rs11155438	0.82[EUR][1000 genomes]
rs11155442	0.85[EUR][1000 genomes]
rs11965018	0.86[EUR][1000 genomes]
rs12190966	0.84[EUR][1000 genomes]
rs12199362	0.84[EUR][1000 genomes]
rs13214277	0.81[EUR][1000 genomes]
rs1337839	0.86[EUR][1000 genomes]
rs1337841	0.86[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs13437042	0.82[EUR][1000 genomes]
rs1415744	0.86[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs1415746	0.86[EUR][1000 genomes]
rs1415747	0.86[EUR][1000 genomes]
rs1569540	0.84[EUR][1000 genomes]
rs1577916	0.88[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs1832362	0.82[EUR][1000 genomes]
rs1883365	0.83[EUR][1000 genomes]
rs1890171	0.84[EUR][1000 genomes]
rs2050027	0.82[EUR][1000 genomes]
rs2064185	0.87[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs2072911	0.81[EUR][1000 genomes]
rs2092263	0.87[EUR][1000 genomes]
rs2142981	0.85[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs2142983	0.84[EUR][1000 genomes]
rs2246334	0.81[EUR][1000 genomes]
rs2249147	0.82[EUR][1000 genomes]
rs2249386	0.82[EUR][1000 genomes]
rs2265474	0.82[EUR][1000 genomes]
rs2265916	0.82[EUR][1000 genomes]
rs2328707	0.90[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs2328709	0.85[EUR][1000 genomes]
rs3811102	0.84[EUR][1000 genomes]
rs4455694	0.82[AMR][1000 genomes];0.90[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs4895683	0.82[EUR][1000 genomes]
rs4895684	0.82[EUR][1000 genomes]
rs4896837	0.82[AMR][1000 genomes];0.90[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs4896838	0.82[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs4896839	0.82[AMR][1000 genomes];0.90[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs4896841	0.90[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs4896842	0.90[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs4896843	0.90[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs4896844	0.86[EUR][1000 genomes]
rs55810423	0.84[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs57700188	0.82[EUR][1000 genomes]
rs62435810	0.81[EUR][1000 genomes]
rs6570708	0.82[EUR][1000 genomes]
rs6570713	0.86[EUR][1000 genomes]
rs6570715	0.82[EUR][1000 genomes]
rs6570716	0.81[EUR][1000 genomes]
rs6570717	0.86[EUR][1000 genomes]
rs6570719	0.83[EUR][1000 genomes]
rs6570723	0.82[EUR][1000 genomes]
rs6570724	0.82[EUR][1000 genomes]
rs6901888	0.82[AMR][1000 genomes];0.91[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs6902913	0.82[EUR][1000 genomes]
rs6906258	0.86[EUR][1000 genomes]
rs6906402	0.86[EUR][1000 genomes]
rs6915718	0.86[EUR][1000 genomes]
rs6917135	0.82[EUR][1000 genomes]
rs6921073	0.84[EUR][1000 genomes]
rs6923678	0.90[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs6928007	0.83[EUR][1000 genomes]
rs6930154	0.86[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs6931553	0.83[EUR][1000 genomes]
rs6932863	0.84[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs6933161	0.83[EUR][1000 genomes]
rs6937661	0.84[EUR][1000 genomes]
rs6941429	0.82[EUR][1000 genomes]
rs697053	0.82[EUR][1000 genomes]
rs697054	0.81[AMR][1000 genomes];0.89[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs697055	0.82[AMR][1000 genomes];0.89[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs697056	0.82[AMR][1000 genomes];0.89[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs702304	0.82[EUR][1000 genomes]
rs702306	0.83[EUR][1000 genomes]
rs702307	0.84[EUR][1000 genomes]
rs702309	0.84[EUR][1000 genomes]
rs702314	0.85[EUR][1000 genomes]
rs702317	0.85[AMR][1000 genomes];0.90[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs702318	0.85[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs702319	0.85[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs702320	0.85[AMR][1000 genomes];0.89[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs702321	0.86[EUR][1000 genomes]
rs702323	0.86[EUR][1000 genomes]
rs702324	0.85[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs735535	0.87[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs735536	0.87[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs7739735	0.82[EUR][1000 genomes]
rs7742333	0.81[EUR][1000 genomes]
rs7744014	0.82[EUR][1000 genomes]
rs7745696	0.82[EUR][1000 genomes]
rs7752286	0.86[EUR][1000 genomes]
rs7753770	0.89[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs7762562	0.82[EUR][1000 genomes]
rs7772717	0.82[EUR][1000 genomes]
rs857881	0.82[EUR][1000 genomes]
rs864148	0.81[EUR][1000 genomes]
rs9373471	0.85[EUR][1000 genomes]
rs9373475	0.84[EUR][1000 genomes]
rs9373476	0.85[EUR][1000 genomes]
rs9376957	0.86[EUR][1000 genomes]
rs9376961	0.86[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs9376968	0.82[EUR][1000 genomes]
rs9386128	0.86[EUR][1000 genomes]
rs9386131	0.82[EUR][1000 genomes]
rs9386132	0.84[EUR][1000 genomes]
rs9386133	0.85[EUR][1000 genomes]
rs9386134	0.83[EUR][1000 genomes]
rs9390348	0.86[EUR][1000 genomes]
rs9390349	0.86[EUR][1000 genomes]
rs9390354	0.82[EUR][1000 genomes]
rs9390355	0.82[EUR][1000 genomes]
rs9390356	0.84[EUR][1000 genomes]
rs9390358	0.84[EUR][1000 genomes]
rs9399561	0.82[EUR][1000 genomes]
rs9399564	0.83[EUR][1000 genomes]
rs9399565	0.83[EUR][1000 genomes]
rs9399567	0.82[EUR][1000 genomes]
rs9403739	0.86[EUR][1000 genomes]
rs9403741	0.87[EUR][1000 genomes]
rs9403742	0.82[ASN][1000 genomes]
rs9403746	0.83[EUR][1000 genomes]
rs9403747	0.82[EUR][1000 genomes]
rs9403749	0.82[EUR][1000 genomes]
rs9403750	0.81[EUR][1000 genomes]
rs9485018	0.86[EUR][1000 genomes]
rs9485019	0.85[EUR][1000 genomes]
rs9485021	0.84[EUR][1000 genomes]
rs9485024	0.85[EUR][1000 genomes]
rs9497395	0.86[EUR][1000 genomes]
rs9497396	0.86[EUR][1000 genomes]
rs9497401	0.90[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs9497406	0.91[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs9497419	0.85[EUR][1000 genomes]
rs991507	0.82[AFR][1000 genomes];0.84[AMR][1000 genomes];0.88[EUR][1000 genomes];0.88[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:1 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv934064	chr6:146007547-146044233	Enhancers Weak transcription Strong transcription Flanking Active TSS ZNF genes & repeats Active TSS	TF binding region CpG island Chromatin interactive region	3 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs9497398	RP11-545I5.3	cis	Esophagus Muscularis	GTEx

Chromatin state (count:25 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:146003400-146033600	Weak transcription	Brain Hippocampus Middle	brain
2	chr6:146006800-146050000	Weak transcription	Brain Cingulate Gyrus	brain
3	chr6:146007400-146043800	Weak transcription	Liver	Liver
4	chr6:146020200-146035000	Weak transcription	Breast Myoepithelial Primary Cells	Breast
5	chr6:146026800-146055800	Weak transcription	Left Ventricle	heart
6	chr6:146027000-146035800	Weak transcription	Thymus	Thymus
7	chr6:146027200-146034400	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
8	chr6:146027600-146043400	Weak transcription	Psoas Muscle	Psoas
9	chr6:146027800-146031400	Weak transcription	HSMMtube	muscle
10	chr6:146027800-146035000	Weak transcription	Skeletal Muscle Female	skeletal muscle
11	chr6:146028600-146049200	Weak transcription	Stomach Smooth Muscle	stomach
12	chr6:146028800-146035000	Weak transcription	Primary T cells from cord blood	blood
13	chr6:146029800-146033600	Weak transcription	Primary B cells from cord blood	blood
14	chr6:146029800-146034800	Weak transcription	Primary hematopoietic stem cells	blood
15	chr6:146029800-146037800	Weak transcription	Right Ventricle	heart
16	chr6:146030000-146032400	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
17	chr6:146030000-146034200	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
18	chr6:146030000-146035000	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
19	chr6:146030000-146036000	Weak transcription	Ovary	ovary
20	chr6:146030000-146043000	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
21	chr6:146030200-146031200	Weak transcription	Primary B cells from peripheral blood	blood
22	chr6:146030200-146035600	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
23	chr6:146030200-146036400	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
24	chr6:146030200-146037800	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
25	chr6:146030200-146054000	Weak transcription	Skeletal Muscle Male	skeletal muscle

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