Variant report

Variant	rs35676838
Chromosome Location	chr3:42634544-42634545
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr3:42620803..42625287-chr3:42629964..42635186,7	MCF-7	breast:
2	chr3:42632973..42636724-chr3:42645956..42649361,3	MCF-7	breast:
3	chr3:42629943..42634676-chr3:42635408..42643782,10	MCF-7	breast:
4	chr3:42632553..42639930-chr3:42692933..42696882,8	K562	blood:

Variant related genes	Relation type
ENSG00000093183	Chromatin interaction
ENSG00000008324	Chromatin interaction
ENSG00000114857	Chromatin interaction
ENSG00000230084	Chromatin interaction
ENSG00000114853	Chromatin interaction

Extended variants
information (count: 84 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:83)

rs_ID	r²[population]
rs1062051	0.89[AFR][1000 genomes];1.00[AMR][1000 genomes];0.91[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs13067987	0.81[EUR][1000 genomes]
rs13072295	0.93[AFR][1000 genomes];0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs13085695	0.89[AFR][1000 genomes];0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs13089845	0.87[AFR][1000 genomes];0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13090902	0.89[AFR][1000 genomes];0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13093680	0.89[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs13095447	0.89[AFR][1000 genomes];0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs17074602	0.83[ASN][1000 genomes]
rs17074662	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs17074664	0.89[ASN][1000 genomes]
rs17074669	0.89[ASN][1000 genomes]
rs17074673	0.89[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs17074674	0.89[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs17074680	0.89[ASN][1000 genomes]
rs17074693	0.89[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs2241542	0.83[ASN][1000 genomes]
rs2271182	0.84[ASN][1000 genomes]
rs2284303	0.93[AFR][1000 genomes];0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs2284304	0.93[AFR][1000 genomes];0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs2300057	0.93[AFR][1000 genomes];0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs2300058	0.93[AFR][1000 genomes];0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs2302352	0.92[AFR][1000 genomes];0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs33969824	0.89[AFR][1000 genomes];0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs33984028	0.89[AFR][1000 genomes];0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs34683820	0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs34687113	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs34762478	0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs34801786	0.89[AFR][1000 genomes];0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs34852409	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs34977988	1.00[AFR][1000 genomes];0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs35216140	0.82[EUR][1000 genomes]
rs35506005	0.81[ASN][1000 genomes]
rs35770315	0.89[ASN][1000 genomes]
rs35871059	0.82[EUR][1000 genomes]
rs35890296	0.89[AFR][1000 genomes];0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs36033201	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs36043081	0.82[EUR][1000 genomes]
rs3774401	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs3774402	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs3774404	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs3774406	0.81[ASN][1000 genomes]
rs3774407	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs3821836	0.92[ASN][1000 genomes]
rs3846058	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs3846059	0.87[AFR][1000 genomes];0.90[AMR][1000 genomes];1.00[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs3856737	0.87[AFR][1000 genomes];0.90[AMR][1000 genomes];1.00[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs3886782	0.97[ASN][1000 genomes]
rs3900780	0.81[EUR][1000 genomes]
rs56047094	0.82[EUR][1000 genomes]
rs56797870	0.89[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs57259216	0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs58868911	0.89[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs59914338	0.83[AFR][1000 genomes];0.89[AMR][1000 genomes];1.00[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs60232916	0.84[AFR][1000 genomes];0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs60348477	0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs60535002	0.82[EUR][1000 genomes]
rs61149998	0.87[AFR][1000 genomes];0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs6441928	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs66786953	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs67059259	0.84[AFR][1000 genomes];0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs67165547	0.85[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs67533173	0.91[AFR][1000 genomes];0.96[AMR][1000 genomes];0.98[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs67583158	0.82[EUR][1000 genomes]
rs6771105	0.82[EUR][1000 genomes]
rs6772312	0.95[ASN][1000 genomes]
rs6778982	0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs6782164	0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs67832425	0.82[EUR][1000 genomes]
rs6788548	0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs6790204	0.81[EUR][1000 genomes]
rs6793186	0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs6795296	0.91[AFR][1000 genomes];0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs6797491	0.82[EUR][1000 genomes]
rs68004576	0.82[EUR][1000 genomes]
rs68028490	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs68071013	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs72864072	0.90[AMR][1000 genomes];1.00[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs73829255	0.82[EUR][1000 genomes]
rs7617403	0.89[AFR][1000 genomes];0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs7617736	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs7623867	0.81[EUR][1000 genomes]
rs7624628	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.85[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	nsv1002944	chr3:42559762-42728909	Strong transcription Flanking Active TSS Weak transcription Enhancers Genic enhancers Transcr. at gene 5' and 3' Active TSS ZNF genes & repeats Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	41 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:122 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:42633000-42634600	Enhancers	Fetal Brain Male	brain
2	chr3:42633200-42634600	Transcr. at gene 5' and 3'	iPS-20b Cell Line	embryonic stem cell
3	chr3:42633200-42635600	Genic enhancers	Primary T cells fromperipheralblood	blood
4	chr3:42633200-42641400	Weak transcription	Aorta	Aorta
5	chr3:42633200-42641600	Weak transcription	Gastric	stomach
6	chr3:42633400-42634800	Weak transcription	Fetal Muscle Trunk	muscle
7	chr3:42633400-42635000	Enhancers	Primary T helper naive cells fromperipheralblood	blood
8	chr3:42633400-42635000	Weak transcription	Liver	Liver
9	chr3:42633400-42635000	Weak transcription	Duodenum Smooth Muscle	Duodenum
10	chr3:42633400-42635000	Weak transcription	Left Ventricle	heart
11	chr3:42633400-42635000	Weak transcription	Small Intestine	intestine
12	chr3:42633400-42635400	Genic enhancers	Primary T helper cells PMA-I stimulated	--
13	chr3:42633400-42635400	Genic enhancers	Primary T helper 17 cells PMA-I stimulated	--
14	chr3:42633400-42635400	Weak transcription	Skeletal Muscle Female	skeletal muscle
15	chr3:42633400-42636400	Strong transcription	Fetal Muscle Leg	muscle
16	chr3:42633400-42641200	Weak transcription	Primary neutrophils fromperipheralblood	blood
17	chr3:42633400-42641200	Weak transcription	Skeletal Muscle Male	skeletal muscle
18	chr3:42633400-42641200	Weak transcription	HSMMtube	muscle
19	chr3:42633400-42641400	Weak transcription	Ovary	ovary
20	chr3:42633400-42641400	Weak transcription	Psoas Muscle	Psoas
21	chr3:42633400-42641400	Weak transcription	Right Ventricle	heart
22	chr3:42633400-42641600	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
23	chr3:42633400-42641600	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
24	chr3:42633400-42641600	Weak transcription	Esophagus	oesophagus
25	chr3:42633400-42641600	Weak transcription	Spleen	Spleen
26	chr3:42633600-42634600	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
27	chr3:42633600-42634800	Weak transcription	Fetal Stomach	stomach
28	chr3:42633600-42634800	Weak transcription	Fetal Thymus	thymus
29	chr3:42633600-42634800	Weak transcription	Monocytes-CD14+_RO01746	blood
30	chr3:42633600-42635000	Weak transcription	HUES6 Cell Line	embryonic stem cell
31	chr3:42633600-42635000	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
32	chr3:42633600-42635000	Weak transcription	Primary monocytes fromperipheralblood	blood
33	chr3:42633600-42635000	Weak transcription	Primary B cells from cord blood	blood
34	chr3:42633600-42635000	Weak transcription	Primary hematopoietic stem cells	blood
35	chr3:42633600-42635000	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
36	chr3:42633600-42635000	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
37	chr3:42633600-42635000	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
38	chr3:42633600-42635000	Weak transcription	Brain Substantia Nigra	brain
39	chr3:42633600-42635000	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
40	chr3:42633600-42635000	Weak transcription	Fetal Brain Female	brain
41	chr3:42633600-42635000	Weak transcription	Placenta Amnion	Placenta Amnion
42	chr3:42633600-42635000	Weak transcription	Thymus	Thymus
43	chr3:42633600-42635000	Weak transcription	HSMM	muscle
44	chr3:42633600-42635200	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
45	chr3:42633600-42635200	Weak transcription	Rectal Mucosa Donor 31	rectum
46	chr3:42633600-42635200	Weak transcription	A549	lung
47	chr3:42633600-42635400	Strong transcription	ES-I3 Cell Line	embryonic stem cell
48	chr3:42633600-42635400	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
49	chr3:42633600-42635400	Genic enhancers	HUES48 Cell Line	embryonic stem cell
50	chr3:42633600-42635400	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell

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