Variant report

Variant	rs35688380
Chromosome Location	chr8:66711903-66711904
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr8:66711497..66714228-chr8:66717933..66720911,3	MCF-7	breast:
2	chr8:66704507..66706983-chr8:66710489..66713459,3	K562	blood:
3	chr8:66711708..66716054-chr8:66716303..66719778,4	K562	blood:

Extended variants
information (count: 24 )
Associated
traits (count: 2 )

rSNPs within LD-proxies of this variant (count:23)

rs_ID	r²[population]
rs11995869	1.00[CEU][hapmap]
rs16932346	0.81[CEU][hapmap]
rs17304488	0.81[AMR][1000 genomes]
rs17304551	0.81[AMR][1000 genomes]
rs17304921	0.81[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs17394029	0.81[AMR][1000 genomes]
rs17394294	0.81[AMR][1000 genomes]
rs17395190	0.81[AMR][1000 genomes]
rs17395394	0.81[AMR][1000 genomes]
rs17395656	0.81[AMR][1000 genomes]
rs17395851	0.81[AMR][1000 genomes]
rs17395878	0.81[AMR][1000 genomes]
rs17395920	0.81[AMR][1000 genomes]
rs17396004	0.81[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs17396066	0.81[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs17396192	0.89[CEU][hapmap];1.00[LWK][hapmap];0.87[TSI][hapmap];0.87[AFR][1000 genomes];0.86[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs3935203	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[GIH][hapmap];1.00[LWK][hapmap];1.00[MKK][hapmap];1.00[TSI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs4392943	0.81[AMR][1000 genomes]
rs4515591	0.81[AMR][1000 genomes]
rs58213885	0.90[EUR][1000 genomes]
rs6996048	1.00[CEU][hapmap];1.00[GIH][hapmap];1.00[TSI][hapmap];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs7001138	1.00[CEU][hapmap];1.00[GIH][hapmap];1.00[TSI][hapmap];0.95[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs7829484	0.81[CEU][hapmap]

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	esv1793412	chr8:66705321-66761366	Weak transcription Enhancers Strong transcription Active TSS Flanking Active TSS Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	22 gene(s)	inside rSNPs	diseases

mRNA abundance (count:2)

SNP	Gene	Cis/trans	Tissue	Source
rs35688380	MTFR1	cis	parietal	SCAN
rs35688380	LIPG	trans	lymphoblastoid	seeQTL

Chromatin state (count:60 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr8:66701600-66717000	Weak transcription	Gastric	stomach
2	chr8:66707200-66712200	Weak transcription	Colon Smooth Muscle	Colon
3	chr8:66707600-66712200	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
4	chr8:66707600-66712400	Weak transcription	Right Atrium	heart
5	chr8:66707800-66715000	Weak transcription	Pancreas	Pancrea
6	chr8:66707800-66715200	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
7	chr8:66707800-66720200	Weak transcription	Aorta	Aorta
8	chr8:66708000-66712400	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
9	chr8:66708000-66715000	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
10	chr8:66708000-66715000	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
11	chr8:66708000-66715000	Weak transcription	Thymus	Thymus
12	chr8:66708800-66712400	Weak transcription	Primary B cells from cord blood	blood
13	chr8:66710000-66712600	Weak transcription	Fetal Thymus	thymus
14	chr8:66710400-66712800	Enhancers	Primary T helper naive cells fromperipheralblood	blood
15	chr8:66710600-66712800	Enhancers	Primary T helper cells fromperipheralblood	blood
16	chr8:66710600-66713400	Enhancers	Primary T cells fromperipheralblood	blood
17	chr8:66710600-66713400	Enhancers	Primary Natural Killer cells fromperipheralblood	blood
18	chr8:66710800-66712200	ZNF genes & repeats	Primary hematopoietic stem cells G-CSF-mobilized Male	--
19	chr8:66710800-66712400	Enhancers	Primary T cells from cord blood	blood
20	chr8:66710800-66712600	Enhancers	Primary T helper naive cells from peripheral blood	blood
21	chr8:66710800-66712800	Enhancers	Primary T helper memory cells from peripheral blood 1	blood
22	chr8:66710800-66713400	Enhancers	Primary T killer memory cells from peripheral blood	blood
23	chr8:66711000-66712800	Enhancers	GM12878-XiMat	blood
24	chr8:66711000-66714200	Enhancers	iPS-18 Cell Line	embryonic stem cell
25	chr8:66711000-66715000	Enhancers	Primary T helper 17 cells PMA-I stimulated	--
26	chr8:66711000-66721600	Enhancers	Primary T killer naive cells fromperipheralblood	blood
27	chr8:66711000-66722400	Enhancers	Primary T helper memory cells from peripheral blood 2	blood
28	chr8:66711200-66712200	Active TSS	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
29	chr8:66711200-66712200	Enhancers	Primary T cells effector/memory enriched fromperipheralblood	blood
30	chr8:66711200-66713400	Enhancers	Sigmoid Colon	Sigmoid Colon
31	chr8:66711200-66713800	Enhancers	Small Intestine	intestine
32	chr8:66711200-66715000	Enhancers	Primary B cells from peripheral blood	blood
33	chr8:66711400-66712400	Strong transcription	Primary hematopoietic stem cells short term culture	blood
34	chr8:66711400-66713000	Enhancers	Primary T regulatory cells fromperipheralblood	blood
35	chr8:66711400-66713200	Enhancers	Primary mononuclear cells fromperipheralblood	Blood
36	chr8:66711400-66713600	Enhancers	ES-UCSF4 Cell Line	embryonic stem cell
37	chr8:66711400-66714600	Enhancers	HUES48 Cell Line	embryonic stem cell
38	chr8:66711600-66712000	Flanking Active TSS	Primary T helper cells PMA-I stimulated	--
39	chr8:66711600-66713000	Enhancers	Fetal Heart	heart
40	chr8:66711600-66713200	Enhancers	iPS-15b Cell Line	embryonic stem cell
41	chr8:66711600-66713200	Enhancers	iPS-20b Cell Line	embryonic stem cell
42	chr8:66711600-66713400	Enhancers	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
43	chr8:66711600-66713400	Enhancers	HepG2	liver
44	chr8:66711600-66714800	Enhancers	HUES64 Cell Line	embryonic stem cell
45	chr8:66711800-66712000	Enhancers	iPS DF 6.9 Cell Line	embryonic stem cell
46	chr8:66711800-66712000	ZNF genes & repeats	Primary hematopoietic stem cells	blood
47	chr8:66711800-66712600	Enhancers	Stomach Mucosa	stomach
48	chr8:66711800-66712800	Enhancers	Left Ventricle	heart
49	chr8:66711800-66713000	Enhancers	Duodenum Smooth Muscle	Duodenum
50	chr8:66711800-66713000	Enhancers	Right Ventricle	heart

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links