Variant report

Variant	rs4290109
Chromosome Location	chr1:76756456-76756457
allele	A/C
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 24 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:22)

rs_ID	r²[population]
rs11162115	0.86[AMR][1000 genomes];0.91[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs12071138	0.86[AMR][1000 genomes];0.90[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs12124295	0.83[AFR][1000 genomes];0.88[AMR][1000 genomes];0.90[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs12124554	0.81[AFR][1000 genomes];0.88[AMR][1000 genomes];0.89[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs12125121	0.83[AFR][1000 genomes];0.88[AMR][1000 genomes];0.90[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs12125168	0.82[AMR][1000 genomes];0.90[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs12126170	0.84[AFR][1000 genomes];0.88[AMR][1000 genomes];0.91[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs12127832	0.83[AFR][1000 genomes];0.88[AMR][1000 genomes];0.90[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs12131613	0.85[AMR][1000 genomes];0.80[EUR][1000 genomes]
rs17670910	0.85[AMR][1000 genomes];0.80[EUR][1000 genomes]
rs17671689	0.86[AMR][1000 genomes];0.90[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs2065793	0.85[AMR][1000 genomes];0.80[EUR][1000 genomes]
rs35517533	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3862899	0.84[AFR][1000 genomes];0.88[AMR][1000 genomes];0.91[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs3862900	0.84[AFR][1000 genomes];0.87[AMR][1000 genomes];0.87[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs3916214	0.84[AFR][1000 genomes];0.88[AMR][1000 genomes];0.90[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs4262595	0.84[AFR][1000 genomes];0.88[AMR][1000 genomes];0.91[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs60579420	0.88[AMR][1000 genomes];0.90[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs6672694	0.84[AFR][1000 genomes];0.88[AMR][1000 genomes];0.87[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs6694998	0.83[AFR][1000 genomes];0.88[AMR][1000 genomes];0.91[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs6697478	0.85[AMR][1000 genomes];0.86[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs72675971	0.84[AMR][1000 genomes];0.87[EUR][1000 genomes];0.82[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:2 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv870621	chr1:76620313-76997071	Enhancers Weak transcription Active TSS Flanking Active TSS ZNF genes & repeats Bivalent Enhancer Strong transcription Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
2	nsv534168	chr1:76718950-77039352	Enhancers Active TSS Weak transcription Flanking Active TSS ZNF genes & repeats Strong transcription Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:44 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr1:76745600-76761000	Weak transcription	Aorta	Aorta
2	chr1:76747600-76757000	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
3	chr1:76749200-76760000	Enhancers	Primary T cells from cord blood	blood
4	chr1:76750200-76760200	Enhancers	Primary T helper cells fromperipheralblood	blood
5	chr1:76750400-76757200	Enhancers	Fetal Thymus	thymus
6	chr1:76750400-76760200	Enhancers	Primary T helper naive cells from peripheral blood	blood
7	chr1:76750400-76760600	Enhancers	Primary T helper cells PMA-I stimulated	--
8	chr1:76750400-76762000	Enhancers	Primary T helper naive cells fromperipheralblood	blood
9	chr1:76751800-76757600	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
10	chr1:76753600-76760200	Enhancers	Primary T helper memory cells from peripheral blood 2	blood
11	chr1:76754000-76758600	Enhancers	Primary T cells fromperipheralblood	blood
12	chr1:76754000-76761600	Enhancers	Primary T killer memory cells from peripheral blood	blood
13	chr1:76755000-76756600	Enhancers	Primary T helper memory cells from peripheral blood 1	blood
14	chr1:76755200-76757200	Enhancers	iPS-18 Cell Line	embryonic stem cell
15	chr1:76755400-76756600	Enhancers	ES-I3 Cell Line	embryonic stem cell
16	chr1:76755400-76756600	Enhancers	H9 Cell Line	embryonic stem cell
17	chr1:76755400-76756600	Enhancers	HUES6 Cell Line	embryonic stem cell
18	chr1:76755400-76756800	Enhancers	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
19	chr1:76755400-76757200	Enhancers	HUES48 Cell Line	embryonic stem cell
20	chr1:76755400-76757200	Enhancers	ES-UCSF4 Cell Line	embryonic stem cell
21	chr1:76755400-76758000	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
22	chr1:76755600-76757800	Enhancers	Primary T killer naive cells fromperipheralblood	blood
23	chr1:76755800-76783000	Weak transcription	Fetal Lung	lung
24	chr1:76756000-76756800	Enhancers	iPS-20b Cell Line	embryonic stem cell
25	chr1:76756000-76757200	Enhancers	H1 Derived Mesenchymal Stem Cells	ES cell derived
26	chr1:76756000-76758800	Enhancers	Primary B cells from cord blood	blood
27	chr1:76756200-76756800	Enhancers	Brain Hippocampus Middle	brain
28	chr1:76756200-76757000	Enhancers	Primary B cells from peripheral blood	blood
29	chr1:76756200-76757200	Enhancers	H1 Cell Line	embryonic stem cell
30	chr1:76756200-76757200	Enhancers	Ganglion Eminence derived primary cultured neurospheres	brain
31	chr1:76756200-76757200	Enhancers	Fetal Muscle Leg	muscle
32	chr1:76756200-76757200	Enhancers	Fetal Stomach	stomach
33	chr1:76756200-76757400	Enhancers	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
34	chr1:76756400-76756600	Enhancers	Primary T helper 17 cells PMA-I stimulated	--
35	chr1:76756400-76756600	Enhancers	Sigmoid Colon	Sigmoid Colon
36	chr1:76756400-76756800	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Female	--
37	chr1:76756400-76756800	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Male	--
38	chr1:76756400-76756800	Enhancers	Cortex derived primary cultured neurospheres	brain
39	chr1:76756400-76757000	Enhancers	Brain Substantia Nigra	brain
40	chr1:76756400-76757200	Enhancers	iPS DF 6.9 Cell Line	embryonic stem cell
41	chr1:76756400-76757200	Enhancers	iPS DF 19.11 Cell Line	embryonic stem cell
42	chr1:76756400-76757400	Enhancers	Fetal Brain Male	brain
43	chr1:76756400-76758800	Weak transcription	HUES64 Cell Line	embryonic stem cell
44	chr1:76756400-76759800	Weak transcription	iPS-15b Cell Line	embryonic stem cell

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