Variant report

Variant	rs3804535
Chromosome Location	chr6:143456607-143456608
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr6:143456250..143457963-chr6:143485705..143488579,2	K562	blood:

Variant related genes	Relation type
ENSG00000146416	Chromatin interaction

Extended variants
information (count: 27 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:27)

rs_ID	r²[population]
rs12660943	0.82[CHB][hapmap];0.84[JPT][hapmap];0.93[EUR][1000 genomes]
rs12663085	0.82[CHB][hapmap];0.84[JPT][hapmap];0.88[EUR][1000 genomes]
rs12665439	0.84[CHB][hapmap];0.94[JPT][hapmap]
rs1334480	0.84[CHB][hapmap];1.00[JPT][hapmap];0.89[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs1334481	1.00[JPT][hapmap];0.89[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs1334482	0.95[CHB][hapmap];0.94[JPT][hapmap];1.00[MEX][hapmap];0.93[TSI][hapmap];0.95[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs3789783	0.90[GIH][hapmap];0.88[TSI][hapmap]
rs3804528	0.82[CHB][hapmap];0.84[JPT][hapmap]
rs3804530	0.82[CHB][hapmap];0.84[JPT][hapmap]
rs3804531	0.86[CHB][hapmap];0.89[JPT][hapmap];0.84[EUR][1000 genomes]
rs60392452	0.81[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs61636934	0.93[EUR][1000 genomes]
rs6900049	0.86[CHB][hapmap];0.98[CHD][hapmap];0.92[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs6905621	0.85[CHB][hapmap];0.95[JPT][hapmap];0.87[AMR][1000 genomes];0.93[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs6908577	0.88[ASN][1000 genomes]
rs6910423	0.86[CHB][hapmap];0.98[CHD][hapmap];0.92[GIH][hapmap];1.00[JPT][hapmap];0.88[TSI][hapmap];0.89[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs6910964	0.89[CHB][hapmap];0.89[JPT][hapmap]
rs6914857	0.86[CHB][hapmap];0.89[JPT][hapmap];0.84[EUR][1000 genomes]
rs6923010	0.87[CHB][hapmap];0.80[CHD][hapmap];0.94[JPT][hapmap];1.00[MEX][hapmap];0.93[TSI][hapmap];0.85[EUR][1000 genomes]
rs6936192	0.82[CHB][hapmap];0.94[JPT][hapmap];1.00[MEX][hapmap];0.93[TSI][hapmap];0.93[EUR][1000 genomes]
rs7738387	0.86[CHB][hapmap];0.98[CHD][hapmap];0.92[GIH][hapmap];1.00[JPT][hapmap];0.88[TSI][hapmap];0.89[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs7741073	0.82[CHB][hapmap];0.84[JPT][hapmap];0.88[EUR][1000 genomes]
rs7775793	0.91[CHB][hapmap];1.00[JPT][hapmap];0.81[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs9386021	0.86[CHB][hapmap];0.93[CHD][hapmap];0.92[GIH][hapmap];0.89[JPT][hapmap];0.88[TSI][hapmap]
rs9403447	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9496521	0.86[CHB][hapmap];0.89[JPT][hapmap];0.89[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs9496524	0.93[EUR][1000 genomes]

No data

Chromatin state (count:67 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:143441200-143479000	Weak transcription	NHLF	lung
2	chr6:143443600-143462200	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
3	chr6:143443800-143498800	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
4	chr6:143444600-143516400	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
5	chr6:143445800-143479200	Weak transcription	Lung	lung
6	chr6:143448000-143458600	Weak transcription	NH-A	brain
7	chr6:143448400-143487400	Weak transcription	Rectal Mucosa Donor 29	rectum
8	chr6:143451000-143460400	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
9	chr6:143452000-143458800	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
10	chr6:143452000-143497000	Weak transcription	Fetal Stomach	stomach
11	chr6:143452200-143458000	Weak transcription	Left Ventricle	heart
12	chr6:143452200-143458200	Weak transcription	HUES48 Cell Line	embryonic stem cell
13	chr6:143452200-143477800	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
14	chr6:143452400-143458000	Weak transcription	HepG2	liver
15	chr6:143452800-143458200	Weak transcription	NHEK	skin
16	chr6:143452800-143461400	Weak transcription	Fetal Heart	heart
17	chr6:143452800-143461800	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
18	chr6:143452800-143463800	Weak transcription	H1 Cell Line	embryonic stem cell
19	chr6:143453000-143457600	Weak transcription	K562	blood
20	chr6:143453000-143457800	Weak transcription	Liver	Liver
21	chr6:143453000-143457800	Weak transcription	Fetal Intestine Large	intestine
22	chr6:143453000-143458000	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
23	chr6:143453000-143458000	Weak transcription	Fetal Intestine Small	intestine
24	chr6:143453000-143458200	Weak transcription	HUES64 Cell Line	embryonic stem cell
25	chr6:143453000-143458200	Weak transcription	Duodenum Mucosa	Duodenum
26	chr6:143453000-143458200	Weak transcription	Duodenum Smooth Muscle	Duodenum
27	chr6:143453000-143458600	Weak transcription	Stomach Smooth Muscle	stomach
28	chr6:143453000-143459200	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
29	chr6:143453000-143460600	Weak transcription	Brain Cingulate Gyrus	brain
30	chr6:143453000-143461800	Weak transcription	Cortex derived primary cultured neurospheres	brain
31	chr6:143453000-143462000	Weak transcription	Brain Angular Gyrus	brain
32	chr6:143453000-143462000	Weak transcription	Colon Smooth Muscle	Colon
33	chr6:143453000-143464400	Weak transcription	HSMM	muscle
34	chr6:143453000-143465400	Weak transcription	Rectal Mucosa Donor 31	rectum
35	chr6:143453000-143474200	Weak transcription	ES-I3 Cell Line	embryonic stem cell
36	chr6:143453000-143481600	Weak transcription	Right Ventricle	heart
37	chr6:143453000-143497200	Weak transcription	Pancreas	Pancrea
38	chr6:143453000-143508600	Weak transcription	Fetal Lung	lung
39	chr6:143453000-143510600	Weak transcription	Brain Inferior Temporal Lobe	brain
40	chr6:143453200-143457600	Weak transcription	HMEC	breast
41	chr6:143453200-143458200	Weak transcription	Adipose Nuclei	Adipose
42	chr6:143453200-143460800	Weak transcription	Fetal Kidney	kidney
43	chr6:143453200-143470800	Weak transcription	Primary neutrophils fromperipheralblood	blood
44	chr6:143453400-143458000	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
45	chr6:143454200-143464000	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
46	chr6:143454600-143458000	Weak transcription	Breast Myoepithelial Primary Cells	Breast
47	chr6:143455000-143458400	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
48	chr6:143455600-143458000	Weak transcription	HUES6 Cell Line	embryonic stem cell
49	chr6:143455600-143460000	Weak transcription	Brain Hippocampus Middle	brain
50	chr6:143456000-143457200	Enhancers	Muscle Satellite Cultured Cells	--

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links