Variant report

Variant	rs61580407
Chromosome Location	chr4:57308281-57308282
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr4:57298117..57310780-chr4:57324651..57337770,39	MCF-7	breast:
2	chr4:57307553..57309303-chr4:57332770..57335058,2	K562	blood:
3	chr4:57306221..57310097-chr4:57330857..57334001,4	MCF-7	breast:

Variant related genes	Relation type
ENSG00000174780	Chromatin interaction
ENSG00000270109	Chromatin interaction

Extended variants
information (count: 38 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:34)

rs_ID	r²[population]
rs17086746	1.00[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs17086755	0.93[AMR][1000 genomes];0.85[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs17086769	0.85[AFR][1000 genomes];1.00[AMR][1000 genomes];0.92[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs17086776	0.90[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs17086786	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs17086844	0.85[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs17086879	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs17086893	0.90[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs17086906	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs17086908	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs17086924	0.85[AMR][1000 genomes];1.00[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs2292984	1.00[EUR][1000 genomes]
rs28649329	1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs34228795	1.00[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs34543011	1.00[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs3796543	1.00[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs4074775	0.90[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs41476944	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs57439970	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs58337902	0.90[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs61732641	0.85[AMR][1000 genomes];1.00[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs73155895	1.00[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs73155901	1.00[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs73157733	0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs73157739	0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs73157754	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs73157769	0.90[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs73157772	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs73157774	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs73157784	0.90[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs73159992	1.00[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs73162272	1.00[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs73167378	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs73167396	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.92[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:4 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv999639	chr4:56942917-57401310	Weak transcription Flanking Active TSS Bivalent/Poised TSS Active TSS Strong transcription Enhancers ZNF genes & repeats Flanking Bivalent TSS/Enh Genic enhancers Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	50 gene(s)	inside rSNPs	diseases
2	nsv1014045	chr4:56942917-57404511	Weak transcription Strong transcription Enhancers Active TSS ZNF genes & repeats Flanking Active TSS Bivalent Enhancer Bivalent/Poised TSS Genic enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	50 gene(s)	inside rSNPs	diseases
3	nsv868815	chr4:57114268-58084688	Weak transcription Bivalent Enhancer Flanking Active TSS Active TSS Enhancers Strong transcription Flanking Bivalent TSS/Enh Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	88 gene(s)	inside rSNPs	diseases
4	nsv530121	chr4:57167367-57695576	Flanking Bivalent TSS/Enh Enhancers Flanking Active TSS Weak transcription Active TSS Genic enhancers Strong transcription Bivalent Enhancer ZNF genes & repeats Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	59 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:122 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr4:57303000-57309000	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
2	chr4:57303400-57330800	Weak transcription	Spleen	Spleen
3	chr4:57303800-57308400	Weak transcription	Sigmoid Colon	Sigmoid Colon
4	chr4:57303800-57326000	Weak transcription	Gastric	stomach
5	chr4:57303800-57331000	Weak transcription	Stomach Mucosa	stomach
6	chr4:57303800-57332000	Weak transcription	Small Intestine	intestine
7	chr4:57304000-57312000	Weak transcription	Left Ventricle	heart
8	chr4:57304000-57315800	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
9	chr4:57304000-57330000	Weak transcription	Pancreas	Pancrea
10	chr4:57304000-57330000	Weak transcription	Right Ventricle	heart
11	chr4:57304000-57331800	Weak transcription	Esophagus	oesophagus
12	chr4:57304200-57314600	Weak transcription	Skeletal Muscle Male	skeletal muscle
13	chr4:57304200-57314800	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
14	chr4:57304200-57317400	Weak transcription	Thymus	Thymus
15	chr4:57304200-57318800	Weak transcription	Colon Smooth Muscle	Colon
16	chr4:57304200-57319200	Weak transcription	Stomach Smooth Muscle	stomach
17	chr4:57304200-57331800	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
18	chr4:57304400-57308400	Weak transcription	Primary monocytes fromperipheralblood	blood
19	chr4:57304400-57308600	Weak transcription	Brain Anterior Caudate	brain
20	chr4:57304400-57308600	Weak transcription	Fetal Kidney	kidney
21	chr4:57304400-57310400	Weak transcription	NHLF	lung
22	chr4:57304400-57312600	Weak transcription	Rectal Mucosa Donor 31	rectum
23	chr4:57304400-57314000	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
24	chr4:57304400-57314000	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
25	chr4:57304400-57314600	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
26	chr4:57304400-57314600	Weak transcription	Duodenum Smooth Muscle	Duodenum
27	chr4:57304400-57314600	Weak transcription	Fetal Brain Female	brain
28	chr4:57304400-57314600	Weak transcription	Monocytes-CD14+_RO01746	blood
29	chr4:57304400-57314800	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
30	chr4:57304400-57314800	Weak transcription	Adipose Nuclei	Adipose
31	chr4:57304400-57314800	Weak transcription	Brain Cingulate Gyrus	brain
32	chr4:57304400-57315200	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
33	chr4:57304400-57315600	Weak transcription	Fetal Stomach	stomach
34	chr4:57304400-57317200	Weak transcription	Ovary	ovary
35	chr4:57304400-57317800	Weak transcription	Primary T helper naive cells from peripheral blood	blood
36	chr4:57304400-57318400	Weak transcription	Psoas Muscle	Psoas
37	chr4:57304400-57318600	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
38	chr4:57304400-57319800	Weak transcription	Brain Inferior Temporal Lobe	brain
39	chr4:57304400-57320200	Weak transcription	Fetal Heart	heart
40	chr4:57304400-57320200	Weak transcription	Rectal Smooth Muscle	rectum
41	chr4:57304400-57321200	Weak transcription	HSMMtube	muscle
42	chr4:57304400-57330800	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
43	chr4:57304400-57330800	Weak transcription	Brain Substantia Nigra	brain
44	chr4:57304400-57331400	Weak transcription	Primary T killer memory cells from peripheral blood	blood
45	chr4:57305200-57311800	Weak transcription	Muscle Satellite Cultured Cells	--
46	chr4:57305600-57308800	Genic enhancers	H9 Derived Neuron Cultured Cells	ES cell derived
47	chr4:57305800-57330400	Strong transcription	Fetal Thymus	thymus
48	chr4:57306200-57312200	Genic enhancers	HepG2	liver
49	chr4:57306200-57314000	Weak transcription	Fetal Intestine Small	intestine
50	chr4:57306200-57314600	Weak transcription	Duodenum Mucosa	Duodenum

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