Variant report

Variant	rs3213580
Chromosome Location	chr6:35810503-35810504
allele	A/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Transcrition factor	Chromosome Location	Cell Line	Cell type	Cell Stage	Matched TF binding sites
1	FOXA1	chr6:35810081-35810520	HepG2	liver:	n/a	n/a
2	FOXA1	chr6:35809964-35810516	HepG2	liver:	n/a	n/a

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr6:35804572..35806345-chr6:35809610..35811448,2	K562	blood:
2	chr6:35808743..35811176-chr6:35836375..35838468,2	K562	blood:

Variant related genes	Relation type
SRPK1	TF binding region
ENSG00000096063	Chromatin interaction

Extended variants
information (count: 74 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:73)

rs_ID	r²[population]
rs10484264	0.86[CEU][hapmap]
rs1049649	1.00[CEU][hapmap];1.00[YRI][hapmap]
rs10947572	0.95[CEU][hapmap]
rs1160828	1.00[CEU][hapmap];1.00[YRI][hapmap]
rs11755072	1.00[CEU][hapmap];1.00[YRI][hapmap]
rs1326752	1.00[CEU][hapmap];1.00[YRI][hapmap]
rs1326756	0.87[CEU][hapmap]
rs17653835	1.00[CEU][hapmap]
rs17705020	1.00[CEU][hapmap]
rs2051647	1.00[CEU][hapmap];1.00[YRI][hapmap]
rs2301510	1.00[CEU][hapmap];1.00[YRI][hapmap]
rs2395640	1.00[CEU][hapmap]
rs2395641	0.87[CEU][hapmap]
rs2395646	0.86[CEU][hapmap]
rs2817027	0.95[CEU][hapmap]
rs2859420	0.86[CEU][hapmap]
rs3761981	0.87[CEU][hapmap]
rs3891863	1.00[CEU][hapmap];1.00[YRI][hapmap]
rs4340986	1.00[CEU][hapmap];1.00[YRI][hapmap]
rs582526	0.87[CEU][hapmap];0.88[YRI][hapmap]
rs595591	0.86[CEU][hapmap]
rs612262	0.86[CEU][hapmap]
rs613540	0.83[CEU][hapmap]
rs638600	0.86[CEU][hapmap]
rs639421	1.00[CEU][hapmap];1.00[YRI][hapmap]
rs6457858	0.95[CEU][hapmap]
rs6457862	1.00[CEU][hapmap];1.00[YRI][hapmap]
rs651158	0.81[CEU][hapmap]
rs662713	0.95[CEU][hapmap];1.00[YRI][hapmap]
rs668438	0.86[CEU][hapmap]
rs671992	0.86[CEU][hapmap]
rs677937	1.00[CEU][hapmap];1.00[YRI][hapmap]
rs6908433	1.00[CEU][hapmap];1.00[YRI][hapmap]
rs6909895	0.87[CEU][hapmap]
rs6911849	1.00[CEU][hapmap];1.00[YRI][hapmap]
rs6916941	1.00[CEU][hapmap];0.83[YRI][hapmap]
rs6923015	1.00[CEU][hapmap];1.00[YRI][hapmap]
rs6929493	1.00[CEU][hapmap];1.00[YRI][hapmap]
rs6931888	0.95[CEU][hapmap]
rs6932973	1.00[CEU][hapmap];1.00[YRI][hapmap]
rs7740886	0.95[CEU][hapmap];1.00[YRI][hapmap]
rs7752545	1.00[CEU][hapmap];0.81[YRI][hapmap]
rs7752551	1.00[CEU][hapmap];1.00[YRI][hapmap]
rs7755022	0.86[CEU][hapmap]
rs7755600	1.00[CEU][hapmap];1.00[YRI][hapmap]
rs7758042	0.86[CEU][hapmap]
rs879493	0.86[CEU][hapmap]
rs879667	0.86[CEU][hapmap]
rs9296168	1.00[CEU][hapmap]
rs9462128	1.00[CEU][hapmap];1.00[YRI][hapmap]
rs9462132	1.00[CEU][hapmap];1.00[YRI][hapmap]
rs9462134	1.00[CEU][hapmap];1.00[YRI][hapmap]
rs9462135	1.00[CEU][hapmap];1.00[YRI][hapmap]
rs9462136	0.86[CEU][hapmap]
rs9462141	1.00[CEU][hapmap];0.95[YRI][hapmap]
rs9462143	1.00[CEU][hapmap];1.00[YRI][hapmap]
rs9470120	1.00[CEU][hapmap];1.00[YRI][hapmap]
rs9470121	1.00[CEU][hapmap];1.00[YRI][hapmap]
rs9470126	1.00[CEU][hapmap];1.00[YRI][hapmap]
rs9470131	1.00[CEU][hapmap];1.00[YRI][hapmap]
rs9470138	1.00[CEU][hapmap];1.00[YRI][hapmap]
rs9470139	1.00[CEU][hapmap];1.00[YRI][hapmap]
rs9470141	1.00[CEU][hapmap];1.00[YRI][hapmap]
rs9470144	1.00[CEU][hapmap];1.00[YRI][hapmap]
rs9470147	1.00[CEU][hapmap]
rs9470152	1.00[CEU][hapmap];1.00[YRI][hapmap]
rs9470153	1.00[CEU][hapmap];1.00[YRI][hapmap]
rs9470154	1.00[CEU][hapmap];1.00[YRI][hapmap]
rs9470155	1.00[CEU][hapmap];1.00[YRI][hapmap]
rs9470156	1.00[CEU][hapmap];1.00[YRI][hapmap]
rs9470162	1.00[CEU][hapmap];1.00[YRI][hapmap]
rs9470171	0.87[CEU][hapmap]
rs9470172	1.00[CEU][hapmap];1.00[YRI][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	esv3430300	chr6:35549151-35959004	Flanking Active TSS Strong transcription Enhancers Active TSS Weak transcription ZNF genes & repeats Flanking Bivalent TSS/Enh Genic enhancers Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	52 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:123 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:35787800-35855600	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
2	chr6:35791400-35824200	Weak transcription	Fetal Brain Male	brain
3	chr6:35791600-35819800	Weak transcription	NHLF	lung
4	chr6:35798200-35823800	Weak transcription	Primary T killer memory cells from peripheral blood	blood
5	chr6:35799600-35837200	Weak transcription	Fetal Kidney	kidney
6	chr6:35799800-35823000	Weak transcription	Colonic Mucosa	Colon
7	chr6:35800000-35816200	Weak transcription	Brain Inferior Temporal Lobe	brain
8	chr6:35800000-35823800	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
9	chr6:35800400-35810800	Strong transcription	Hela-S3	cervix
10	chr6:35800400-35810800	Strong transcription	NH-A	brain
11	chr6:35800400-35816000	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
12	chr6:35800400-35816200	Strong transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
13	chr6:35800400-35816400	Strong transcription	HUES64 Cell Line	embryonic stem cell
14	chr6:35800600-35810600	Strong transcription	HUES48 Cell Line	embryonic stem cell
15	chr6:35800600-35810800	Strong transcription	iPS-18 Cell Line	embryonic stem cell
16	chr6:35800600-35816400	Strong transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
17	chr6:35800600-35816400	Strong transcription	iPS-20b Cell Line	embryonic stem cell
18	chr6:35800600-35859000	Strong transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
19	chr6:35801000-35810600	Strong transcription	H1 Cell Line	embryonic stem cell
20	chr6:35801000-35813800	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
21	chr6:35801000-35832600	Strong transcription	Fetal Thymus	thymus
22	chr6:35801000-35840600	Strong transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
23	chr6:35801200-35819800	Weak transcription	Spleen	Spleen
24	chr6:35801200-35824000	Weak transcription	Colon Smooth Muscle	Colon
25	chr6:35801200-35826400	Strong transcription	HUES6 Cell Line	embryonic stem cell
26	chr6:35801200-35837200	Strong transcription	H9 Derived Neuron Cultured Cells	ES cell derived
27	chr6:35801200-35849000	Strong transcription	Dnd41	blood
28	chr6:35801400-35810600	Strong transcription	Primary T cells fromperipheralblood	blood
29	chr6:35801400-35813600	Strong transcription	ES-UCSF4 Cell Line	embryonic stem cell
30	chr6:35801400-35816000	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
31	chr6:35801400-35816800	Strong transcription	Primary T cells from cord blood	blood
32	chr6:35801400-35832400	Strong transcription	HepG2	liver
33	chr6:35801600-35816200	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
34	chr6:35801600-35816200	Weak transcription	Psoas Muscle	Psoas
35	chr6:35801800-35827800	Weak transcription	Brain Substantia Nigra	brain
36	chr6:35801800-35828800	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
37	chr6:35802000-35811600	Strong transcription	Osteobl	bone
38	chr6:35802000-35816200	Strong transcription	Primary hematopoietic stem cells short term culture	blood
39	chr6:35802000-35824000	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
40	chr6:35803000-35819800	Weak transcription	HSMMtube	muscle
41	chr6:35803000-35823600	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
42	chr6:35803200-35819000	Weak transcription	Ovary	ovary
43	chr6:35803200-35823600	Weak transcription	Esophagus	oesophagus
44	chr6:35803200-35828800	Weak transcription	Pancreas	Pancrea
45	chr6:35803400-35816200	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
46	chr6:35803400-35816400	Weak transcription	Right Ventricle	heart
47	chr6:35803400-35817000	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
48	chr6:35803400-35823800	Weak transcription	Aorta	Aorta
49	chr6:35803400-35823800	Weak transcription	Small Intestine	intestine
50	chr6:35803800-35823400	Weak transcription	Brain Cingulate Gyrus	brain

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