Variant report

Variant	rs6904652
Chromosome Location	chr6:37422118-37422119
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr6:37416282..37419426-chr6:37419538..37422367,4	MCF-7	breast:
2	chr6:37416543..37419137-chr6:37419847..37423268,4	K562	blood:
3	chr6:37400094..37404380-chr6:37420727..37423757,3	K562	blood:

Variant related genes	Relation type
ENSG00000137200	Chromatin interaction

Extended variants
information (count: 23 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:22)

rs_ID	r²[population]
rs2173314	0.87[TSI][hapmap]
rs2776901	0.85[CEU][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[TSI][hapmap];0.97[EUR][1000 genomes]
rs2776915	0.94[EUR][1000 genomes]
rs2776919	0.85[CEU][hapmap];0.97[EUR][1000 genomes]
rs28581421	0.91[EUR][1000 genomes]
rs59158311	0.80[AFR][1000 genomes];0.91[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs6904458	1.00[ASW][hapmap];0.85[CEU][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];0.97[LWK][hapmap];1.00[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs6917159	0.81[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs6919260	0.97[EUR][1000 genomes]
rs6940323	1.00[ASW][hapmap];0.85[CEU][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];0.97[LWK][hapmap];0.98[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];0.92[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs6942190	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73409227	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73730776	0.81[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs73730780	0.82[EUR][1000 genomes]
rs7751388	0.89[ASW][hapmap];0.85[CEU][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];0.94[LWK][hapmap];1.00[MKK][hapmap];1.00[TSI][hapmap];0.86[YRI][hapmap];1.00[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs9462313	1.00[ASW][hapmap];0.85[CEU][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];0.97[LWK][hapmap];1.00[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9462316	0.97[EUR][1000 genomes]
rs9470580	0.82[AMR][1000 genomes]
rs9470595	0.97[EUR][1000 genomes]
rs9470599	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9470601	0.85[CEU][hapmap];0.97[EUR][1000 genomes]
rs9470604	0.91[EUR][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	esv2752124	chr6:37416219-37680622	Weak transcription Enhancers Flanking Active TSS Genic enhancers Strong transcription Bivalent Enhancer Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA	22 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	chr6:37402200-37427800	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
2	chr6:37403000-37434400	Strong transcription	Fetal Adrenal Gland	Adrenal Gland
3	chr6:37403200-37423800	Strong transcription	Fetal Thymus	thymus
4	chr6:37403200-37432000	Strong transcription	Primary neutrophils fromperipheralblood	blood
5	chr6:37403200-37432600	Strong transcription	Placenta	Placenta
6	chr6:37403200-37433200	Strong transcription	Breast Myoepithelial Primary Cells	Breast
7	chr6:37403400-37423800	Strong transcription	K562	blood
8	chr6:37403400-37432000	Strong transcription	Foreskin Melanocyte Primary Cells skin03	Skin
9	chr6:37408800-37433400	Strong transcription	H9 Derived Neuron Cultured Cells	ES cell derived
10	chr6:37409200-37426400	Strong transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
11	chr6:37410000-37422200	Strong transcription	HUES48 Cell Line	embryonic stem cell
12	chr6:37410400-37432400	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
13	chr6:37410600-37434200	Strong transcription	Primary T cells from cord blood	blood
14	chr6:37411200-37428200	Weak transcription	Pancreatic Islets	Pancreatic Islet
15	chr6:37411200-37431400	Strong transcription	GM12878-XiMat	blood
16	chr6:37411200-37432800	Strong transcription	Primary B cells from cord blood	blood
17	chr6:37411200-37433200	Strong transcription	Fetal Intestine Small	intestine
18	chr6:37411400-37427600	Strong transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
19	chr6:37411400-37432200	Strong transcription	Primary mononuclear cells fromperipheralblood	Blood
20	chr6:37411400-37433600	Strong transcription	Dnd41	blood
21	chr6:37411400-37437200	Strong transcription	Primary Natural Killer cells fromperipheralblood	blood
22	chr6:37411600-37424800	Strong transcription	Skeletal Muscle Female	skeletal muscle
23	chr6:37411600-37427200	Strong transcription	Fetal Muscle Leg	muscle
24	chr6:37411600-37427800	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
25	chr6:37411600-37431800	Strong transcription	Primary T helper naive cells fromperipheralblood	blood
26	chr6:37411600-37431800	Strong transcription	Duodenum Mucosa	Duodenum
27	chr6:37411600-37432000	Strong transcription	Primary T cells fromperipheralblood	blood
28	chr6:37411600-37432000	Strong transcription	Primary hematopoietic stem cells short term culture	blood
29	chr6:37411600-37432000	Strong transcription	Liver	Liver
30	chr6:37411600-37432000	Strong transcription	Fetal Muscle Trunk	muscle
31	chr6:37411600-37432200	Strong transcription	Thymus	Thymus
32	chr6:37411600-37432800	Strong transcription	Primary B cells from peripheral blood	blood
33	chr6:37411600-37433400	Strong transcription	Primary monocytes fromperipheralblood	blood
34	chr6:37411600-37433400	Strong transcription	Primary T helper cells fromperipheralblood	blood
35	chr6:37411600-37436400	Strong transcription	Monocytes-CD14+_RO01746	blood
36	chr6:37411800-37422200	Strong transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
37	chr6:37411800-37424000	Strong transcription	iPS-18 Cell Line	embryonic stem cell
38	chr6:37411800-37424600	Strong transcription	HUES64 Cell Line	embryonic stem cell
39	chr6:37411800-37424600	Strong transcription	Brain Hippocampus Middle	brain
40	chr6:37411800-37424600	Strong transcription	Fetal Lung	lung
41	chr6:37411800-37424800	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
42	chr6:37411800-37431800	Strong transcription	Left Ventricle	heart
43	chr6:37411800-37432200	Strong transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
44	chr6:37411800-37433000	Strong transcription	Adipose Nuclei	Adipose
45	chr6:37411800-37433800	Strong transcription	Primary T helper cells PMA-I stimulated	--
46	chr6:37411800-37434600	Strong transcription	Fetal Intestine Large	intestine
47	chr6:37412000-37425200	Strong transcription	Primary T helper 17 cells PMA-I stimulated	--
48	chr6:37412000-37432600	Strong transcription	Primary T regulatory cells fromperipheralblood	blood
49	chr6:37412600-37426400	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
50	chr6:37413400-37424000	Strong transcription	Ovary	ovary

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links