Variant report

Variant	rs35823566
Chromosome Location	chr6:37988955-37988956
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr6:37988302..37990407-chr6:37992998..37995067,2	K562	blood:

Extended variants
information (count: 54 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:46)

rs_ID	r²[population]
rs10456097	0.86[AMR][1000 genomes];0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1187422	0.84[ASN][1000 genomes]
rs1187423	0.84[ASN][1000 genomes]
rs12192182	0.84[ASN][1000 genomes]
rs12198907	0.81[AFR][1000 genomes];0.82[AMR][1000 genomes];0.84[ASN][1000 genomes]
rs12200258	0.81[AFR][1000 genomes];0.82[AMR][1000 genomes];0.81[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs12204352	0.80[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs12206818	0.84[ASN][1000 genomes]
rs12211248	0.84[ASN][1000 genomes]
rs12211981	0.84[ASN][1000 genomes]
rs12213151	0.81[AFR][1000 genomes];0.82[AMR][1000 genomes];0.86[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs12213835	0.84[ASN][1000 genomes]
rs13210701	0.84[ASN][1000 genomes]
rs13214465	0.82[AMR][1000 genomes];0.87[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs13220131	0.88[AFR][1000 genomes];0.88[EUR][1000 genomes]
rs16890344	0.80[EUR][1000 genomes]
rs171831	0.80[ASN][1000 genomes]
rs2132597	0.85[AMR][1000 genomes];0.88[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs259673	0.84[ASN][1000 genomes]
rs259684	0.81[ASN][1000 genomes]
rs259686	0.84[ASN][1000 genomes]
rs259689	0.84[ASN][1000 genomes]
rs259690	0.84[ASN][1000 genomes]
rs259691	0.84[ASN][1000 genomes]
rs259695	0.84[ASN][1000 genomes]
rs259713	0.84[ASN][1000 genomes]
rs259715	0.84[ASN][1000 genomes]
rs259716	0.80[ASN][1000 genomes]
rs2645102	0.84[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs2645107	0.82[AMR][1000 genomes];0.81[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs2645113	0.87[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2645116	0.89[AMR][1000 genomes];0.88[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs2645120	0.87[AMR][1000 genomes];0.86[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs2645127	0.87[AMR][1000 genomes];0.90[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2645128	0.89[AMR][1000 genomes];0.89[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2645131	0.84[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs2645134	0.85[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs2645137	0.85[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs2842500	0.88[AMR][1000 genomes];0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2842517	0.82[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs2842527	0.87[AMR][1000 genomes];0.88[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2842529	0.89[AMR][1000 genomes];0.93[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs34871463	0.84[ASN][1000 genomes]
rs56098839	0.81[AMR][1000 genomes];0.87[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9647619	0.81[AFR][1000 genomes];0.84[ASN][1000 genomes]
rs966705	0.84[ASN][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	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
3	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
4	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
5	nsv1021991	chr6:37893949-38738720	Weak transcription Enhancers Strong transcription Flanking Active TSS Genic enhancers Flanking Bivalent TSS/Enh ZNF genes & repeats Active TSS Bivalent/Poised TSS Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	20 gene(s)	inside rSNPs	diseases
6	esv34450	chr6:37963308-38007241	Enhancers Weak transcription ZNF genes & repeats Flanking Active TSS Active TSS Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
7	esv2763549	chr6:37985025-38014006	Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats Active TSS Genic enhancers	Chromatin interactive region	2 gene(s)	inside rSNPs	diseases
8	esv2754649	chr6:37985025-38147910	Enhancers Weak transcription Strong transcription Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3' Flanking Active TSS Active TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	2 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:43 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:37963000-37995600	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
2	chr6:37979400-37989000	Weak transcription	Primary T cells from cord blood	blood
3	chr6:37981400-37989000	Weak transcription	Breast Myoepithelial Primary Cells	Breast
4	chr6:37981400-37989000	Weak transcription	Primary T helper cells PMA-I stimulated	--
5	chr6:37981400-37990400	Weak transcription	Fetal Brain Female	brain
6	chr6:37982600-37989400	Weak transcription	Psoas Muscle	Psoas
7	chr6:37983000-37994600	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
8	chr6:37983400-37994600	Weak transcription	Skeletal Muscle Female	skeletal muscle
9	chr6:37984200-37989400	Enhancers	Liver	Liver
10	chr6:37985000-37989000	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
11	chr6:37985000-37995600	Weak transcription	Primary hematopoietic stem cells	blood
12	chr6:37985000-38002400	Weak transcription	Primary B cells from cord blood	blood
13	chr6:37985000-38030200	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
14	chr6:37985200-37989000	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
15	chr6:37985200-37991400	Weak transcription	GM12878-XiMat	blood
16	chr6:37985200-37995000	Weak transcription	Primary hematopoietic stem cells short term culture	blood
17	chr6:37985200-37995400	Weak transcription	A549	lung
18	chr6:37985200-37995600	Weak transcription	Brain Angular Gyrus	brain
19	chr6:37985200-38001400	Weak transcription	Small Intestine	intestine
20	chr6:37985400-37989000	Weak transcription	Monocytes-CD14+_RO01746	blood
21	chr6:37985400-37992200	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
22	chr6:37987000-37993600	Weak transcription	Sigmoid Colon	Sigmoid Colon
23	chr6:37987400-37990800	Enhancers	Colon Smooth Muscle	Colon
24	chr6:37987600-37989600	Enhancers	Cortex derived primary cultured neurospheres	brain
25	chr6:37987600-37989800	Enhancers	Left Ventricle	heart
26	chr6:37987600-37989800	Enhancers	Rectal Smooth Muscle	rectum
27	chr6:37987800-37990000	Enhancers	Stomach Smooth Muscle	stomach
28	chr6:37987800-37990400	Enhancers	Duodenum Smooth Muscle	Duodenum
29	chr6:37987800-37990800	Enhancers	Fetal Stomach	stomach
30	chr6:37988000-38001400	Weak transcription	Stomach Mucosa	stomach
31	chr6:37988200-37989200	Enhancers	Fetal Lung	lung
32	chr6:37988400-37989000	Enhancers	iPS-15b Cell Line	embryonic stem cell
33	chr6:37988400-37989400	Enhancers	H9 Derived Neuron Cultured Cells	ES cell derived
34	chr6:37988400-37989800	Enhancers	Brain Anterior Caudate	brain
35	chr6:37988400-37990400	Enhancers	Ganglion Eminence derived primary cultured neurospheres	brain
36	chr6:37988400-37990400	Enhancers	Brain Hippocampus Middle	brain
37	chr6:37988400-37995600	Weak transcription	Skeletal Muscle Male	skeletal muscle
38	chr6:37988600-37989400	Weak transcription	Right Ventricle	heart
39	chr6:37988600-37989600	Enhancers	Primary T helper memory cells from peripheral blood 1	blood
40	chr6:37988800-37989000	Enhancers	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
41	chr6:37988800-37989200	Flanking Active TSS	Pancreatic Islets	Pancreatic Islet
42	chr6:37988800-37989600	Enhancers	Primary neutrophils fromperipheralblood	blood
43	chr6:37988800-37989600	Weak transcription	Brain Substantia Nigra	brain

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links