Variant report

Variant	rs16874062
Chromosome Location	chr6:35251195-35251196
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr6:35250607..35252613-chr6:35252914..35254653,2	K562	blood:
2	chr6:35251015..35257008-chr6:35259512..35261942,5	K562	blood:
3	chr6:35249001..35251643-chr6:35253439..35256338,3	MCF-7	breast:
4	chr6:35227633..35229883-chr6:35250389..35252972,3	K562	blood:
5	chr6:35235219..35237440-chr6:35250503..35252576,2	MCF-7	breast:
6	chr6:35248636..35252801-chr6:35252914..35256314,5	K562	blood:

Variant related genes	Relation type
ENSG00000065029	Chromatin interaction

Extended variants
information (count: 44 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:42)

rs_ID	r²[population]
rs1034450	0.81[AMR][1000 genomes]
rs12332985	0.92[YRI][hapmap];0.86[AFR][1000 genomes];0.92[AMR][1000 genomes]
rs16868695	1.00[MEX][hapmap]
rs16868709	0.84[ASW][hapmap];0.92[LWK][hapmap];0.80[MKK][hapmap];0.93[YRI][hapmap];0.86[AFR][1000 genomes]
rs16874216	1.00[MEX][hapmap]
rs16874262	1.00[ASW][hapmap];1.00[LWK][hapmap];1.00[MKK][hapmap];1.00[YRI][hapmap];0.98[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs2187903	1.00[MEX][hapmap];0.81[AMR][1000 genomes]
rs2228265	0.81[AMR][1000 genomes]
rs28627111	0.81[AMR][1000 genomes]
rs59895076	0.81[AMR][1000 genomes]
rs60569490	0.81[AMR][1000 genomes]
rs6901580	0.81[AMR][1000 genomes]
rs6906117	0.93[YRI][hapmap];0.99[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs6934083	1.00[MEX][hapmap]
rs6938138	1.00[MEX][hapmap]
rs743965	1.00[MEX][hapmap];0.81[AMR][1000 genomes]
rs9296145	0.93[YRI][hapmap]
rs9462061	0.83[LWK][hapmap]
rs9462062	0.81[AMR][1000 genomes]
rs9462064	0.81[AMR][1000 genomes]
rs9462066	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9462070	0.93[YRI][hapmap]
rs9462076	0.86[AFR][1000 genomes]
rs9469959	0.85[AMR][1000 genomes]
rs9469960	0.81[AMR][1000 genomes]
rs9469965	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9469966	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9469967	0.81[AMR][1000 genomes]
rs9469969	0.91[AFR][1000 genomes];0.93[AMR][1000 genomes]
rs9469977	0.86[YRI][hapmap];0.96[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9469983	0.84[LWK][hapmap];0.93[YRI][hapmap]
rs9469984	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9469987	0.93[YRI][hapmap]
rs9469993	1.00[YRI][hapmap];0.86[AFR][1000 genomes];0.92[AMR][1000 genomes]
rs9469999	0.83[AFR][1000 genomes]
rs9470003	0.93[YRI][hapmap]
rs9470004	0.84[ASW][hapmap];0.92[LWK][hapmap];0.80[MKK][hapmap];0.93[YRI][hapmap];0.86[AFR][1000 genomes]
rs9470008	0.86[AFR][1000 genomes]
rs9470011	0.84[ASW][hapmap];0.92[LWK][hapmap];0.80[MKK][hapmap];0.93[YRI][hapmap];0.86[AFR][1000 genomes]
rs9470012	0.86[AFR][1000 genomes]
rs9658064	0.84[AFR][1000 genomes]
rs9658065	0.84[AFR][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	esv2758047	chr6:35168116-35291002	Enhancers Flanking Bivalent TSS/Enh Flanking Active TSS Strong transcription Active TSS Weak transcription Bivalent/Poised TSS Bivalent Enhancer Genic enhancers Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	26 gene(s)	inside rSNPs	diseases
2	esv2759419	chr6:35168116-35291002	Weak transcription Flanking Active TSS Active TSS Enhancers Genic enhancers Strong transcription Bivalent/Poised TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	26 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:125 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:35228600-35253200	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
2	chr6:35228800-35251400	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
3	chr6:35232600-35265200	Weak transcription	Stomach Mucosa	stomach
4	chr6:35233800-35258400	Weak transcription	Small Intestine	intestine
5	chr6:35237800-35253400	Weak transcription	Gastric	stomach
6	chr6:35237800-35264800	Weak transcription	K562	blood
7	chr6:35243400-35256800	Weak transcription	NHEK	skin
8	chr6:35243400-35265000	Weak transcription	ES-I3 Cell Line	embryonic stem cell
9	chr6:35243600-35254000	Weak transcription	H9 Cell Line	embryonic stem cell
10	chr6:35244000-35253800	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
11	chr6:35244600-35253600	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
12	chr6:35246800-35254000	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
13	chr6:35247200-35253000	Weak transcription	iPS-18 Cell Line	embryonic stem cell
14	chr6:35247800-35255400	Strong transcription	Fetal Muscle Trunk	muscle
15	chr6:35247800-35264600	Strong transcription	Primary mononuclear cells fromperipheralblood	Blood
16	chr6:35248000-35264800	Strong transcription	Stomach Smooth Muscle	stomach
17	chr6:35248200-35253400	Weak transcription	H1 Cell Line	embryonic stem cell
18	chr6:35248400-35251800	Strong transcription	Lung	lung
19	chr6:35248400-35255000	Strong transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
20	chr6:35248400-35262200	Strong transcription	Primary T cells fromperipheralblood	blood
21	chr6:35248400-35263400	Strong transcription	Rectal Smooth Muscle	rectum
22	chr6:35248400-35264400	Strong transcription	Primary T helper 17 cells PMA-I stimulated	--
23	chr6:35248600-35253800	Weak transcription	iPS-15b Cell Line	embryonic stem cell
24	chr6:35248600-35264200	Strong transcription	Primary monocytes fromperipheralblood	blood
25	chr6:35248600-35264200	Strong transcription	Fetal Thymus	thymus
26	chr6:35248600-35264400	Strong transcription	Monocytes-CD14+_RO01746	blood
27	chr6:35248800-35251400	Strong transcription	ES-UCSF4 Cell Line	embryonic stem cell
28	chr6:35248800-35251400	Strong transcription	Pancreatic Islets	Pancreatic Islet
29	chr6:35248800-35251600	Strong transcription	Primary T helper memory cells from peripheral blood 2	blood
30	chr6:35248800-35251800	Strong transcription	HUES6 Cell Line	embryonic stem cell
31	chr6:35248800-35251800	Strong transcription	Foreskin Fibroblast Primary Cells skin02	Skin
32	chr6:35248800-35251800	Strong transcription	Brain Dorsolateral Prefrontal Cortex	brain
33	chr6:35248800-35251800	Strong transcription	Colonic Mucosa	Colon
34	chr6:35248800-35251800	Strong transcription	Rectal Mucosa Donor 31	rectum
35	chr6:35248800-35252000	Strong transcription	Ganglion Eminence derived primary cultured neurospheres	brain
36	chr6:35248800-35252000	Strong transcription	Brain Hippocampus Middle	brain
37	chr6:35248800-35256600	Strong transcription	Primary T helper naive cells from peripheral blood	blood
38	chr6:35248800-35257000	Strong transcription	Breast Myoepithelial Primary Cells	Breast
39	chr6:35248800-35260000	Strong transcription	Primary B cells from peripheral blood	blood
40	chr6:35248800-35260200	Strong transcription	Primary B cells from cord blood	blood
41	chr6:35248800-35261200	Weak transcription	A549	lung
42	chr6:35248800-35262000	Strong transcription	Primary T helper cells PMA-I stimulated	--
43	chr6:35248800-35263600	Strong transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
44	chr6:35248800-35263600	Strong transcription	Duodenum Mucosa	Duodenum
45	chr6:35248800-35263800	Strong transcription	Foreskin Melanocyte Primary Cells skin03	Skin
46	chr6:35248800-35264000	Strong transcription	Duodenum Smooth Muscle	Duodenum
47	chr6:35248800-35264000	Strong transcription	Sigmoid Colon	Sigmoid Colon
48	chr6:35248800-35264000	Strong transcription	Dnd41	blood
49	chr6:35248800-35264200	Strong transcription	Primary T helper naive cells fromperipheralblood	blood
50	chr6:35248800-35264400	Strong transcription	Primary hematopoietic stem cells short term culture	blood

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