Variant report

Variant	rs13406202
Chromosome Location	chr2:234465467-234465468
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

TF binding
region (count:0)
CpG islands
(count:0)
Chromatin interactive
region (count:11)
LncRNA
region (count:0)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

No data

(count:11 , 50 per page) page: 1

No.	Distal block	Cell Line	Cell type
1	chr2:234392005..234393999-chr2:234465226..234467759,2	MCF-7	breast:
2	chr2:234464618..234469702-chr2:234598682..234603333,7	MCF-7	breast:
3	chr2:234464274..234466431-chr2:234607467..234610619,3	MCF-7	breast:
4	chr2:234394050..234398896-chr2:234464004..234468219,7	MCF-7	breast:
5	chr2:234395132..234400709-chr2:234463204..234468540,10	MCF-7	breast:
6	chr2:234464216..234467169-chr2:234597494..234599447,2	MCF-7	breast:
7	chr2:234464967..234466988-chr2:234593051..234595705,2	MCF-7	breast:
8	chr2:234461453..234463034-chr2:234464749..234466939,2	K562	blood:
9	chr2:234460739..234462307-chr2:234463991..234467615,3	K562	blood:
10	chr2:234463856..234470010-chr2:234471624..234476696,15	MCF-7	breast:
11	chr2:234465036..234467198-chr2:234467958..234469567,2	K562	blood:

No data

Variant related genes	Relation type
ENSG00000085982	Chromatin interaction
ENSG00000167165	Chromatin interaction

Extended variants
information (count: 45 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:42)

rs_ID	r²[population]
rs10182818	1.00[EUR][1000 genomes]
rs10187694	1.00[AMR][1000 genomes]
rs13383382	1.00[AMR][1000 genomes]
rs13389374	1.00[EUR][1000 genomes]
rs13389943	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs13390054	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs13395852	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs13398912	1.00[EUR][1000 genomes]
rs13399415	1.00[AMR][1000 genomes]
rs13401703	1.00[EUR][1000 genomes]
rs13403445	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs13403667	1.00[EUR][1000 genomes]
rs13406449	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs13422131	1.00[AMR][1000 genomes]
rs28898571	1.00[EUR][1000 genomes]
rs28898573	1.00[EUR][1000 genomes]
rs28898598	1.00[EUR][1000 genomes]
rs28900378	1.00[EUR][1000 genomes]
rs28900380	1.00[EUR][1000 genomes]
rs28968515	1.00[EUR][1000 genomes]
rs28969703	1.00[EUR][1000 genomes]
rs28969712	1.00[EUR][1000 genomes]
rs28969974	1.00[EUR][1000 genomes]
rs28970005	1.00[EUR][1000 genomes]
rs28970006	1.00[EUR][1000 genomes]
rs28970014	1.00[EUR][1000 genomes]
rs28970015	1.00[EUR][1000 genomes]
rs45498701	1.00[EUR][1000 genomes]
rs45505392	1.00[EUR][1000 genomes]
rs45548336	1.00[EUR][1000 genomes]
rs45568235	1.00[EUR][1000 genomes]
rs58592401	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs59937078	1.00[AMR][1000 genomes]
rs73121108	1.00[EUR][1000 genomes]
rs73123128	1.00[EUR][1000 genomes]
rs73123133	1.00[EUR][1000 genomes]
rs73123137	1.00[EUR][1000 genomes]
rs73123148	1.00[EUR][1000 genomes]
rs73123150	1.00[EUR][1000 genomes]
rs73123152	1.00[AMR][1000 genomes]
rs7594222	1.00[EUR][1000 genomes]
rs9287602	1.00[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:3 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv529419	chr2:234229606-234670426	Weak transcription Enhancers Strong transcription ZNF genes & repeats Active TSS Flanking Active TSS Genic enhancers Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	39 gene(s)	inside rSNPs	diseases
2	nsv876013	chr2:234338227-234579915	Weak transcription Active TSS Genic enhancers Flanking Active TSS Strong transcription ZNF genes & repeats Transcr. at gene 5' and 3' Enhancers Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	26 gene(s)	inside rSNPs	diseases
3	nsv428072	chr2:234393609-234624769	Weak transcription Strong transcription Enhancers Flanking Active TSS Genic enhancers Active TSS ZNF genes & repeats Bivalent Enhancer Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	25 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:112 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr2:234387400-234466000	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
2	chr2:234402200-234472400	Weak transcription	Psoas Muscle	Psoas
3	chr2:234411600-234465600	Weak transcription	Thymus	Thymus
4	chr2:234413000-234474200	Weak transcription	Fetal Heart	heart
5	chr2:234423200-234473400	Weak transcription	Pancreatic Islets	Pancreatic Islet
6	chr2:234426200-234474000	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
7	chr2:234427000-234466200	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
8	chr2:234428800-234474400	Weak transcription	Brain Germinal Matrix	brain
9	chr2:234430200-234473800	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
10	chr2:234430800-234472800	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
11	chr2:234432000-234467600	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
12	chr2:234432200-234474800	Weak transcription	Spleen	Spleen
13	chr2:234432600-234474400	Weak transcription	Colonic Mucosa	Colon
14	chr2:234434600-234466200	Weak transcription	Right Ventricle	heart
15	chr2:234437200-234474400	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
16	chr2:234440800-234465600	Weak transcription	iPS-20b Cell Line	embryonic stem cell
17	chr2:234441600-234465800	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
18	chr2:234441600-234466200	Weak transcription	Esophagus	oesophagus
19	chr2:234441600-234474800	Weak transcription	Gastric	stomach
20	chr2:234442400-234474400	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
21	chr2:234442600-234465600	Weak transcription	Muscle Satellite Cultured Cells	--
22	chr2:234443400-234466000	Weak transcription	Fetal Brain Female	brain
23	chr2:234447800-234474800	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
24	chr2:234451200-234474200	Weak transcription	Primary T helper naive cells from peripheral blood	blood
25	chr2:234453000-234466000	Strong transcription	Placenta	Placenta
26	chr2:234453200-234474400	Weak transcription	Small Intestine	intestine
27	chr2:234453600-234474000	Weak transcription	iPS-18 Cell Line	embryonic stem cell
28	chr2:234453800-234465800	Strong transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
29	chr2:234454800-234466200	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
30	chr2:234455200-234466200	Weak transcription	Lung	lung
31	chr2:234455400-234468400	Weak transcription	Fetal Intestine Small	intestine
32	chr2:234455400-234474400	Weak transcription	Brain Cingulate Gyrus	brain
33	chr2:234455800-234465600	Weak transcription	K562	blood
34	chr2:234456200-234465600	Weak transcription	NH-A	brain
35	chr2:234456600-234465600	Weak transcription	Stomach Mucosa	stomach
36	chr2:234456600-234465800	Weak transcription	Sigmoid Colon	Sigmoid Colon
37	chr2:234456600-234474000	Weak transcription	Fetal Brain Male	brain
38	chr2:234457400-234466000	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
39	chr2:234457400-234474000	Weak transcription	Rectal Smooth Muscle	rectum
40	chr2:234457600-234466000	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
41	chr2:234459200-234469800	Strong transcription	Liver	Liver
42	chr2:234459600-234466400	Strong transcription	Fetal Muscle Trunk	muscle
43	chr2:234459600-234470000	Strong transcription	Breast Myoepithelial Primary Cells	Breast
44	chr2:234459800-234466000	Strong transcription	Skeletal Muscle Female	skeletal muscle
45	chr2:234459800-234469200	Strong transcription	HepG2	liver
46	chr2:234460000-234465800	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
47	chr2:234460000-234469800	Strong transcription	Adipose Nuclei	Adipose
48	chr2:234460200-234465800	Weak transcription	Pancreas	Pancrea
49	chr2:234460600-234465800	Weak transcription	Aorta	Aorta
50	chr2:234460600-234474000	Weak transcription	Colon Smooth Muscle	Colon

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