Variant report

Variant	rs10798435
Chromosome Location	chr1:175968181-175968182
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 92 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:88)

rs_ID	r²[population]
rs10158829	1.00[CEU][hapmap]
rs10494496	1.00[CEU][hapmap];0.90[ASN][1000 genomes]
rs10737316	1.00[CEU][hapmap];1.00[YRI][hapmap];0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs10798430	1.00[CHB][hapmap]
rs10798431	1.00[CEU][hapmap];0.92[YRI][hapmap];0.87[AFR][1000 genomes];0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs10798433	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs11803301	0.88[ASN][1000 genomes]
rs11806468	1.00[CEU][hapmap]
rs11809136	1.00[CEU][hapmap]
rs12239888	1.00[CEU][hapmap]
rs1357338	1.00[CHB][hapmap]
rs1522637	1.00[CEU][hapmap];1.00[YRI][hapmap];0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];0.88[ASN][1000 genomes]
rs16849522	1.00[CEU][hapmap]
rs1831447	1.00[CEU][hapmap];1.00[YRI][hapmap];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs2039232	1.00[CEU][hapmap];1.00[YRI][hapmap];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs2481632	1.00[CHB][hapmap]
rs2481639	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs2481640	1.00[CHB][hapmap]
rs2481648	1.00[CHB][hapmap]
rs2481653	1.00[CEU][hapmap];1.00[YRI][hapmap];0.86[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs2481660	1.00[AMR][1000 genomes]
rs2502821	1.00[CHB][hapmap]
rs2502824	1.00[CEU][hapmap];0.86[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs2502825	0.83[AFR][1000 genomes];0.86[AMR][1000 genomes];0.82[ASN][1000 genomes]
rs2502827	1.00[CHB][hapmap]
rs2502828	1.00[CHB][hapmap]
rs2502837	1.00[CHB][hapmap]
rs2774925	1.00[CHB][hapmap]
rs2861629	1.00[CEU][hapmap];0.97[YRI][hapmap];0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];0.88[ASN][1000 genomes]
rs3845368	1.00[CEU][hapmap]
rs4233165	1.00[CHB][hapmap]
rs4304533	1.00[CEU][hapmap];1.00[YRI][hapmap];0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs4307526	0.81[ASN][1000 genomes]
rs4344283	1.00[CHB][hapmap]
rs4347169	1.00[CHB][hapmap]
rs4379645	1.00[CHB][hapmap]
rs4460596	1.00[CHB][hapmap]
rs4534339	1.00[CHB][hapmap]
rs4543747	1.00[CEU][hapmap];1.00[YRI][hapmap];0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs4652140	0.90[ASN][1000 genomes]
rs4652141	0.97[ASN][1000 genomes]
rs4652142	0.97[ASN][1000 genomes]
rs4652144	0.97[ASN][1000 genomes]
rs4652148	1.00[CEU][hapmap]
rs4652152	1.00[CEU][hapmap]
rs559341	1.00[CEU][hapmap];1.00[YRI][hapmap];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs56952885	0.90[ASN][1000 genomes]
rs57395528	0.87[EUR][1000 genomes]
rs58325269	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs58399286	0.84[ASN][1000 genomes]
rs598177	1.00[AMR][1000 genomes]
rs598855	1.00[CHB][hapmap]
rs599326	1.00[YRI][hapmap];0.95[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs60086820	0.97[ASN][1000 genomes]
rs602933	1.00[CEU][hapmap];1.00[YRI][hapmap];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs61132016	0.94[AFR][1000 genomes];0.90[AMR][1000 genomes];1.00[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs613965	1.00[CHB][hapmap]
rs6425369	1.00[CHB][hapmap]
rs6425370	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs6425372	1.00[CHB][hapmap]
rs6425374	1.00[CHB][hapmap]
rs646754	1.00[CHB][hapmap]
rs6672278	0.90[AMR][1000 genomes]
rs6674353	1.00[CHB][hapmap]
rs6687043	0.81[ASN][1000 genomes]
rs6688211	0.81[ASN][1000 genomes]
rs6704250	1.00[CHB][hapmap]
rs6704509	0.81[ASN][1000 genomes]
rs704825	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs704828	1.00[CHB][hapmap]
rs704830	1.00[CEU][hapmap];1.00[YRI][hapmap];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73035644	0.84[ASN][1000 genomes]
rs73035646	0.84[ASN][1000 genomes]
rs73038827	0.97[ASN][1000 genomes]
rs73038833	0.97[ASN][1000 genomes]
rs7522442	1.00[CEU][hapmap];1.00[YRI][hapmap];0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs7523048	1.00[CHB][hapmap]
rs7525112	1.00[CHB][hapmap]
rs7532122	1.00[CHB][hapmap]
rs7536464	1.00[CEU][hapmap];1.00[YRI][hapmap];0.88[AFR][1000 genomes];0.90[AMR][1000 genomes];0.89[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7541563	1.00[CHB][hapmap]
rs7543769	1.00[CEU][hapmap];1.00[YRI][hapmap];0.96[AFR][1000 genomes];0.95[AMR][1000 genomes];0.89[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs7543882	0.97[ASN][1000 genomes]
rs7554913	1.00[CHB][hapmap]
rs791748	1.00[CHB][hapmap]
rs796933	1.00[CEU][hapmap];1.00[YRI][hapmap];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs796934	1.00[AMR][1000 genomes]
rs998631	1.00[CHB][hapmap]

Variant overlapped rSNPs/rCNVs (count:4 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	esv1823794	chr1:175869554-176311778	Enhancers ZNF genes & repeats Strong transcription Weak transcription Active TSS Bivalent Enhancer Genic enhancers Flanking Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	33 gene(s)	inside rSNPs	diseases
2	nsv872561	chr1:175949646-176092167	Weak transcription Strong transcription ZNF genes & repeats Enhancers Genic enhancers Active TSS Flanking Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
3	nsv872562	chr1:175949646-176141866	Weak transcription Enhancers Strong transcription ZNF genes & repeats Genic enhancers Flanking Active TSS Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases
4	nsv872563	chr1:175949646-176184625	Weak transcription ZNF genes & repeats Strong transcription Flanking Active TSS Enhancers Active TSS Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	23 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:30 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr1:175946000-175996000	Weak transcription	HMEC	breast
2	chr1:175953800-175999600	Weak transcription	Colonic Mucosa	Colon
3	chr1:175954000-175977800	Weak transcription	Sigmoid Colon	Sigmoid Colon
4	chr1:175954000-175978000	Weak transcription	Left Ventricle	heart
5	chr1:175954000-175987800	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
6	chr1:175954800-175968600	Weak transcription	Fetal Muscle Leg	muscle
7	chr1:175957000-175981200	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
8	chr1:175957600-175977400	Weak transcription	Cortex derived primary cultured neurospheres	brain
9	chr1:175957600-175977400	Weak transcription	HSMM	muscle
10	chr1:175957800-175971200	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
11	chr1:175957800-176022000	Weak transcription	Primary T helper naive cells from peripheral blood	blood
12	chr1:175958000-175977200	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
13	chr1:175958000-175977200	Weak transcription	Rectal Mucosa Donor 31	rectum
14	chr1:175958000-175977400	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
15	chr1:175958000-175987800	Weak transcription	Fetal Thymus	thymus
16	chr1:175958200-175978000	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
17	chr1:175958400-175968200	Weak transcription	Fetal Lung	lung
18	chr1:175958600-175977400	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
19	chr1:175958600-175977400	Weak transcription	Primary neutrophils fromperipheralblood	blood
20	chr1:175958600-175977400	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
21	chr1:175958600-175977400	Weak transcription	Rectal Mucosa Donor 29	rectum
22	chr1:175958800-175980600	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
23	chr1:175959200-175977400	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
24	chr1:175959400-175977400	Weak transcription	Dnd41	blood
25	chr1:175960000-175977400	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
26	chr1:175961000-175971600	Weak transcription	Primary B cells from cord blood	blood
27	chr1:175961000-175977600	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
28	chr1:175961200-175977600	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
29	chr1:175962400-175977800	Weak transcription	Primary hematopoietic stem cells	blood
30	chr1:175962400-175977800	Weak transcription	Primary hematopoietic stem cells short term culture	blood

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