Variant report

Variant	rs73730823
Chromosome Location	chr6:37844946-37844947
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	chr6:37786115..37788243-chr6:37843246..37845643,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000156639	Chromatin interaction
ENSG00000225945	Chromatin interaction

Extended variants
information (count: 51 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:43)

rs_ID	r²[population]
rs10046397	0.92[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs10080245	1.00[EUR][1000 genomes]
rs12178911	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs56958593	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs57527781	1.00[AFR][1000 genomes]
rs58305294	0.92[AFR][1000 genomes];0.90[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs58698408	0.87[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs58860274	0.81[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs60997161	1.00[EUR][1000 genomes]
rs6904932	1.00[EUR][1000 genomes]
rs6906120	0.96[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs6912045	0.94[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs6924117	0.96[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs6926669	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs6930823	0.90[AMR][1000 genomes]
rs73730817	0.87[AFR][1000 genomes];0.83[AMR][1000 genomes]
rs73730818	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73730827	0.96[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs73730832	0.96[AFR][1000 genomes];0.80[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73730849	0.81[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs73730859	1.00[EUR][1000 genomes]
rs7756841	0.96[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs7765448	1.00[EUR][1000 genomes]
rs7769848	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9462362	1.00[EUR][1000 genomes]
rs9462367	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9462370	1.00[EUR][1000 genomes]
rs9462371	1.00[EUR][1000 genomes]
rs9462375	1.00[EUR][1000 genomes]
rs9470707	0.90[AMR][1000 genomes]
rs9470711	0.90[AFR][1000 genomes];0.80[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9470715	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9470716	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9470717	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9470719	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9470722	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9470729	0.96[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs9470731	0.96[AFR][1000 genomes];0.80[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9470733	1.00[EUR][1000 genomes]
rs9470736	0.96[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs9470744	0.81[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs9470745	1.00[EUR][1000 genomes]
rs9470757	1.00[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:8 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1028825	chr6:37495154-38278320	Enhancers Active TSS Weak transcription Bivalent/Poised TSS Flanking Active TSS Bivalent Enhancer Strong transcription Flanking Bivalent TSS/Enh ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	19 gene(s)	inside rSNPs	diseases
2	nsv1024016	chr6:37567651-37981590	Weak transcription Enhancers Active TSS Strong transcription Bivalent Enhancer Flanking Bivalent TSS/Enh ZNF genes & repeats Genic enhancers Flanking Active TSS Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	14 gene(s)	inside rSNPs	diseases
3	nsv1017051	chr6:37789341-38084719	Weak transcription Enhancers Flanking Active TSS ZNF genes & repeats Strong transcription Genic enhancers Active TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
4	nsv538203	chr6:37789341-38084719	Enhancers Weak transcription Strong transcription Flanking Active TSS ZNF genes & repeats Genic enhancers Active TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
5	nsv1018711	chr6:37813397-37981590	Enhancers Weak transcription Flanking Active TSS Active TSS Strong transcription ZNF genes & repeats Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
6	nsv1016375	chr6:37816863-37865655	Enhancers Weak transcription Genic enhancers Flanking Active TSS ZNF genes & repeats Strong transcription Active TSS	Chromatin interactive region	2 gene(s)	inside rSNPs	diseases
7	nsv538204	chr6:37816863-37865655	Weak transcription Enhancers ZNF genes & repeats Flanking Active TSS Strong transcription Active TSS Genic enhancers	Chromatin interactive region	2 gene(s)	inside rSNPs	diseases
8	nsv1020625	chr6:37833591-38155622	Weak transcription Enhancers Strong transcription Flanking Active TSS ZNF genes & repeats Genic enhancers Active TSS Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	4 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:94 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:37813600-37845200	Weak transcription	K562	blood
2	chr6:37820000-37850200	Weak transcription	Fetal Kidney	kidney
3	chr6:37831000-37846000	Weak transcription	Esophagus	oesophagus
4	chr6:37834000-37845800	Weak transcription	Spleen	Spleen
5	chr6:37834000-37846000	Weak transcription	Lung	lung
6	chr6:37834000-37849200	Weak transcription	Fetal Thymus	thymus
7	chr6:37834800-37845600	Weak transcription	Pancreas	Pancrea
8	chr6:37834800-37849200	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
9	chr6:37835200-37845000	Weak transcription	Duodenum Mucosa	Duodenum
10	chr6:37835200-37845200	Weak transcription	Right Atrium	heart
11	chr6:37835200-37845600	Weak transcription	Thymus	Thymus
12	chr6:37836400-37845000	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
13	chr6:37836400-37845200	Weak transcription	Aorta	Aorta
14	chr6:37836400-37845400	Weak transcription	Brain Hippocampus Middle	brain
15	chr6:37836400-37845800	Weak transcription	Rectal Mucosa Donor 31	rectum
16	chr6:37836400-37846400	Weak transcription	Primary T killer memory cells from peripheral blood	blood
17	chr6:37836400-37849000	Weak transcription	Primary hematopoietic stem cells short term culture	blood
18	chr6:37836400-37849000	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
19	chr6:37836400-37849400	Weak transcription	H9 Cell Line	embryonic stem cell
20	chr6:37836400-37849800	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
21	chr6:37836400-37861800	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
22	chr6:37836600-37845400	Weak transcription	Rectal Smooth Muscle	rectum
23	chr6:37836600-37847800	Weak transcription	A549	lung
24	chr6:37836600-37849000	Weak transcription	Primary B cells from cord blood	blood
25	chr6:37836800-37845200	Weak transcription	HSMM	muscle
26	chr6:37837000-37849200	Weak transcription	HSMMtube	muscle
27	chr6:37837200-37845600	Weak transcription	NH-A	brain
28	chr6:37837200-37856000	Weak transcription	NHEK	skin
29	chr6:37837600-37845400	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
30	chr6:37838200-37845400	Weak transcription	Left Ventricle	heart
31	chr6:37838400-37846000	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
32	chr6:37838600-37845000	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
33	chr6:37839800-37845000	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
34	chr6:37840200-37845200	Weak transcription	Psoas Muscle	Psoas
35	chr6:37840200-37845400	Weak transcription	Adipose Nuclei	Adipose
36	chr6:37840200-37845800	Weak transcription	iPS-18 Cell Line	embryonic stem cell
37	chr6:37840200-37845800	Weak transcription	Primary B cells from peripheral blood	blood
38	chr6:37840200-37848000	Weak transcription	HUES64 Cell Line	embryonic stem cell
39	chr6:37840200-37855400	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
40	chr6:37840400-37845800	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
41	chr6:37840400-37850200	Weak transcription	HMEC	breast
42	chr6:37840400-37860000	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
43	chr6:37840600-37845200	Weak transcription	iPS-15b Cell Line	embryonic stem cell
44	chr6:37840600-37845800	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
45	chr6:37840600-37861800	Weak transcription	Primary T cells from cord blood	blood
46	chr6:37840800-37849200	Weak transcription	Primary hematopoietic stem cells	blood
47	chr6:37841200-37849000	Weak transcription	Cortex derived primary cultured neurospheres	brain
48	chr6:37841200-37852200	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
49	chr6:37841400-37849000	Weak transcription	Placenta	Placenta
50	chr6:37841600-37862400	Weak transcription	Fetal Lung	lung

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links