Variant report

Variant	rs9394471
Chromosome Location	chr6:37998400-37998401
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr6:37991053..37993262-chr6:37997611..38000343,2	K562	blood:

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

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

rs_ID	r²[population]
rs174105	0.84[ASN][1000 genomes]
rs187741	0.82[ASN][1000 genomes]
rs1979759	0.86[ASN][1000 genomes]
rs2055205	0.86[ASN][1000 genomes]
rs2201646	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs259672	0.81[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs259674	0.85[ASN][1000 genomes]
rs259675	0.86[ASN][1000 genomes]
rs259676	0.81[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs259677	0.81[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs259678	0.81[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs259682	0.85[ASN][1000 genomes]
rs259683	0.86[ASN][1000 genomes]
rs259685	0.84[ASN][1000 genomes]
rs259687	0.86[ASN][1000 genomes]
rs259688	0.82[ASN][1000 genomes]
rs259693	0.86[ASN][1000 genomes]
rs259694	0.86[ASN][1000 genomes]
rs4506034	0.84[EUR][1000 genomes]
rs4711522	0.91[AFR][1000 genomes];0.92[ASN][1000 genomes]
rs4711523	0.88[EUR][1000 genomes]
rs4711524	0.94[AFR][1000 genomes];0.96[AMR][1000 genomes];0.97[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs4714118	0.91[AFR][1000 genomes];0.95[ASN][1000 genomes]
rs4714125	0.87[EUR][1000 genomes]
rs6458036	0.95[AFR][1000 genomes];0.90[AMR][1000 genomes];0.92[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs6458042	0.84[EUR][1000 genomes]
rs67479083	0.90[AFR][1000 genomes];0.92[ASN][1000 genomes]
rs6912097	0.83[EUR][1000 genomes]
rs6915506	0.83[EUR][1000 genomes]
rs6917668	0.81[AFR][1000 genomes];0.87[ASN][1000 genomes]
rs6920185	0.89[AFR][1000 genomes];0.95[ASN][1000 genomes]
rs6929371	0.85[EUR][1000 genomes]
rs6930859	0.81[AFR][1000 genomes];0.86[EUR][1000 genomes]
rs7751390	0.87[EUR][1000 genomes]
rs7765798	0.98[AFR][1000 genomes];0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9369029	0.92[AFR][1000 genomes];0.81[AMR][1000 genomes];0.99[ASN][1000 genomes]
rs9380716	0.81[AFR][1000 genomes];0.81[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs9394469	0.94[AFR][1000 genomes];0.95[ASN][1000 genomes]
rs9462374	0.95[AFR][1000 genomes];0.93[AMR][1000 genomes];0.94[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs9462380	0.87[EUR][1000 genomes]
rs9470767	0.86[EUR][1000 genomes]
rs9470800	0.80[EUR][1000 genomes]
rs9647620	0.83[EUR][1000 genomes];0.81[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:69 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:37985000-38002400	Weak transcription	Primary B cells from cord blood	blood
2	chr6:37985000-38030200	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
3	chr6:37985200-38001400	Weak transcription	Small Intestine	intestine
4	chr6:37988000-38001400	Weak transcription	Stomach Mucosa	stomach
5	chr6:37990400-38000400	Weak transcription	Brain Hippocampus Middle	brain
6	chr6:37990600-38005800	Weak transcription	Stomach Smooth Muscle	stomach
7	chr6:37992800-37998600	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
8	chr6:37993000-38001800	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
9	chr6:37994400-37999200	Weak transcription	Sigmoid Colon	Sigmoid Colon
10	chr6:37994400-38011400	Weak transcription	Aorta	Aorta
11	chr6:37995200-38000800	Weak transcription	Primary T helper cells fromperipheralblood	blood
12	chr6:37995600-37998800	Weak transcription	H9 Cell Line	embryonic stem cell
13	chr6:37995600-38001200	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
14	chr6:37995800-37998400	Weak transcription	iPS-18 Cell Line	embryonic stem cell
15	chr6:37995800-37998600	Weak transcription	HUES64 Cell Line	embryonic stem cell
16	chr6:37995800-37998600	Weak transcription	iPS-20b Cell Line	embryonic stem cell
17	chr6:37995800-37998600	Weak transcription	NHEK	skin
18	chr6:37995800-37999000	Weak transcription	Breast Myoepithelial Primary Cells	Breast
19	chr6:37995800-38001200	Weak transcription	Skeletal Muscle Female	skeletal muscle
20	chr6:37995800-38003800	Weak transcription	Skeletal Muscle Male	skeletal muscle
21	chr6:37995800-38005400	Weak transcription	Psoas Muscle	Psoas
22	chr6:37995800-38008000	Weak transcription	Fetal Muscle Leg	muscle
23	chr6:37995800-38013000	Weak transcription	Fetal Thymus	thymus
24	chr6:37995800-38020600	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
25	chr6:37996000-37998400	Weak transcription	HUES48 Cell Line	embryonic stem cell
26	chr6:37996000-37998600	Weak transcription	iPS-15b Cell Line	embryonic stem cell
27	chr6:37996000-37998600	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
28	chr6:37996000-37998800	Weak transcription	HUES6 Cell Line	embryonic stem cell
29	chr6:37996000-37998800	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
30	chr6:37996000-38000200	Weak transcription	Brain Anterior Caudate	brain
31	chr6:37996000-38000200	Weak transcription	Colon Smooth Muscle	Colon
32	chr6:37996000-38000400	Weak transcription	Brain Angular Gyrus	brain
33	chr6:37996000-38000800	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
34	chr6:37996000-38001200	Weak transcription	Brain Substantia Nigra	brain
35	chr6:37996000-38001200	Weak transcription	Duodenum Smooth Muscle	Duodenum
36	chr6:37996000-38001200	Weak transcription	Rectal Smooth Muscle	rectum
37	chr6:37996000-38001400	Weak transcription	Primary T helper naive cells from peripheral blood	blood
38	chr6:37996000-38002000	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
39	chr6:37996000-38002600	Weak transcription	ES-I3 Cell Line	embryonic stem cell
40	chr6:37996000-38015400	Weak transcription	HSMMtube	muscle
41	chr6:37996200-38005400	Weak transcription	Brain Cingulate Gyrus	brain
42	chr6:37996200-38008000	Weak transcription	Monocytes-CD14+_RO01746	blood
43	chr6:37996200-38008600	Weak transcription	HUVEC	blood vessel
44	chr6:37996400-37998600	Weak transcription	Primary T killer memory cells from peripheral blood	blood
45	chr6:37996400-38000400	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
46	chr6:37996400-38001400	Weak transcription	Primary T cells from cord blood	blood
47	chr6:37996600-38001200	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
48	chr6:37996600-38002000	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
49	chr6:37996600-38002000	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
50	chr6:37996600-38002400	Weak transcription	NHDF-Ad	bronchial

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links