Variant report

Variant	rs10010290
Chromosome Location	chr4:78116046-78116047
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr4:78108762..78112124-chr4:78114726..78117506,3	K562	blood:
2	chr4:78077628..78079889-chr4:78114181..78117091,2	MCF-7	breast:
3	chr4:78114444..78117366-chr4:78117947..78121379,3	K562	blood:

Variant related genes	Relation type
ENSG00000138764	Chromatin interaction

Extended variants
information (count: 56 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:55)

rs_ID	r²[population]
rs10005142	0.89[AFR][1000 genomes];0.99[ASN][1000 genomes]
rs10009384	0.95[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.85[AFR][1000 genomes];0.97[ASN][1000 genomes]
rs10018359	0.95[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.85[AFR][1000 genomes];0.99[ASN][1000 genomes]
rs10020351	0.89[AFR][1000 genomes];0.80[AMR][1000 genomes];0.99[ASN][1000 genomes]
rs10025838	0.81[CEU][hapmap];0.87[CHB][hapmap];0.87[JPT][hapmap]
rs10026129	0.95[CHB][hapmap];1.00[JPT][hapmap];0.91[YRI][hapmap];0.89[AFR][1000 genomes];0.99[ASN][1000 genomes]
rs10026795	0.89[AFR][1000 genomes];0.99[ASN][1000 genomes]
rs10030735	0.82[JPT][hapmap]
rs10030867	0.95[CHB][hapmap];1.00[JPT][hapmap];0.91[YRI][hapmap];0.82[AFR][1000 genomes];0.97[ASN][1000 genomes]
rs10030957	0.95[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.85[AFR][1000 genomes];0.99[ASN][1000 genomes]
rs1006042	1.00[CEU][hapmap];0.83[CHB][hapmap];0.87[JPT][hapmap];0.80[EUR][1000 genomes]
rs10856957	0.95[CHB][hapmap];0.95[JPT][hapmap];0.81[YRI][hapmap];0.85[AFR][1000 genomes];0.99[ASN][1000 genomes]
rs11097728	0.85[AFR][1000 genomes];0.92[ASN][1000 genomes]
rs11097729	0.82[AFR][1000 genomes];0.97[ASN][1000 genomes]
rs11097730	0.95[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.85[AFR][1000 genomes];0.80[AMR][1000 genomes];0.98[ASN][1000 genomes]
rs11097741	0.82[AFR][1000 genomes];0.96[ASN][1000 genomes]
rs12504397	0.97[ASN][1000 genomes]
rs12504752	0.96[CEU][hapmap];0.80[EUR][1000 genomes]
rs12508219	0.89[CHB][hapmap];0.90[JPT][hapmap];0.82[AFR][1000 genomes];0.97[ASN][1000 genomes]
rs12509168	0.82[CEU][hapmap];0.88[CHB][hapmap];0.87[JPT][hapmap]
rs12640093	0.81[CEU][hapmap];0.87[CHB][hapmap];0.87[JPT][hapmap]
rs1477314	0.87[CHB][hapmap];0.95[JPT][hapmap];0.80[ASN][1000 genomes]
rs1559119	0.87[CHB][hapmap];0.95[JPT][hapmap];0.82[ASN][1000 genomes]
rs1559122	0.87[CHB][hapmap];0.95[JPT][hapmap];0.83[ASN][1000 genomes]
rs1968235	0.82[ASN][1000 genomes]
rs2042228	0.87[CHB][hapmap];0.95[JPT][hapmap];0.82[ASN][1000 genomes]
rs4280759	0.82[CEU][hapmap];0.88[CHB][hapmap];0.87[JPT][hapmap]
rs4285107	0.84[AFR][1000 genomes];0.96[ASN][1000 genomes]
rs4504280	0.81[ASN][1000 genomes]
rs4536958	0.96[ASN][1000 genomes]
rs4538513	0.97[ASN][1000 genomes]
rs4547817	0.82[CEU][hapmap];0.88[CHB][hapmap];0.87[JPT][hapmap]
rs4563522	0.85[CHB][hapmap];0.85[JPT][hapmap]
rs4576030	0.95[CHB][hapmap];1.00[JPT][hapmap]
rs4582179	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.97[AFR][1000 genomes];0.97[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs4582180	0.95[CHB][hapmap];1.00[JPT][hapmap];0.90[YRI][hapmap];0.85[AFR][1000 genomes];0.99[ASN][1000 genomes]
rs4859473	0.80[CEU][hapmap]
rs4859475	0.89[CHB][hapmap];1.00[JPT][hapmap];0.89[YRI][hapmap];0.82[AFR][1000 genomes];0.97[ASN][1000 genomes]
rs4859477	0.87[CHB][hapmap];0.95[JPT][hapmap];0.83[ASN][1000 genomes]
rs4859753	0.95[CHB][hapmap];1.00[JPT][hapmap];0.91[YRI][hapmap];0.99[ASN][1000 genomes]
rs4859754	0.95[CHB][hapmap];1.00[JPT][hapmap];0.82[YRI][hapmap];0.99[ASN][1000 genomes]
rs4859755	0.95[CHB][hapmap];1.00[JPT][hapmap];0.97[ASN][1000 genomes]
rs4859756	0.85[CEU][hapmap];0.87[CHB][hapmap];0.87[JPT][hapmap]
rs4859758	0.82[AFR][1000 genomes];0.96[ASN][1000 genomes]
rs6532904	0.96[ASN][1000 genomes]
rs6532919	0.82[ASN][1000 genomes]
rs6532921	0.91[JPT][hapmap];0.84[ASN][1000 genomes]
rs6822794	0.87[CHB][hapmap];0.95[JPT][hapmap];0.82[ASN][1000 genomes]
rs6838744	0.82[ASN][1000 genomes]
rs6840915	0.82[CHB][hapmap];0.87[JPT][hapmap]
rs6844009	0.82[ASN][1000 genomes]
rs6845599	0.83[CHB][hapmap];0.87[JPT][hapmap]
rs6846698	0.82[CEU][hapmap];0.88[CHB][hapmap];0.87[JPT][hapmap]
rs6857792	0.83[CHB][hapmap];0.87[JPT][hapmap]
rs7690427	0.87[CHB][hapmap];1.00[JPT][hapmap];0.96[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	nsv1000730	chr4:78109138-78210296	Enhancers Weak transcription Flanking Active TSS Bivalent Enhancer Bivalent/Poised TSS Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases

No data

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr4:78112000-78116200	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
2	chr4:78112000-78117400	Weak transcription	Fetal Muscle Leg	muscle
3	chr4:78112000-78120600	Weak transcription	Placenta Amnion	Placenta Amnion
4	chr4:78112200-78120600	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
5	chr4:78113600-78118600	Weak transcription	NHEK	skin
6	chr4:78113600-78120400	Weak transcription	HMEC	breast
7	chr4:78113800-78120400	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
8	chr4:78114200-78116200	Enhancers	Placenta	Placenta
9	chr4:78114200-78116200	Flanking Active TSS	GM12878-XiMat	blood
10	chr4:78115000-78116200	Flanking Active TSS	Primary B cells from cord blood	blood
11	chr4:78115200-78116200	Enhancers	Primary T killer naive cells fromperipheralblood	blood
12	chr4:78115200-78116400	Enhancers	Primary Natural Killer cells fromperipheralblood	blood
13	chr4:78115200-78116600	Enhancers	Fetal Thymus	thymus
14	chr4:78115400-78116200	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Female	--
15	chr4:78115400-78116200	Enhancers	Thymus	Thymus
16	chr4:78115400-78116400	Enhancers	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
17	chr4:78115400-78116400	Enhancers	Primary monocytes fromperipheralblood	blood
18	chr4:78115400-78119200	Enhancers	Primary B cells from peripheral blood	blood
19	chr4:78115600-78116400	Enhancers	Primary T cells from cord blood	blood
20	chr4:78115600-78116400	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Male	--
21	chr4:78115800-78116400	Enhancers	Primary hematopoietic stem cells	blood
22	chr4:78115800-78116600	Enhancers	Primary neutrophils fromperipheralblood	blood
23	chr4:78115800-78120400	Weak transcription	Primary T helper naive cells from peripheral blood	blood
24	chr4:78116000-78116400	Enhancers	Primary hematopoietic stem cells short term culture	blood
25	chr4:78116000-78116400	Enhancers	Monocytes-CD14+_RO01746	blood

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