Variant report

Variant	rs979196
Chromosome Location	chr4:143536271-143536272
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:18)
LncRNA
region (count:0)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

No data

(count:18 , 50 per page) page: 1

No.	Distal block	Cell Line	Cell type
1	chr4:143408585..143411765-chr4:143534873..143537251,4	MCF-7	breast:
2	chr4:143535928..143538576-chr4:143767240..143768815,2	MCF-7	breast:
3	chr4:143469197..143474225-chr4:143534708..143538333,6	MCF-7	breast:
4	chr4:143536204..143537085-chr4:143957486..143958196,6	MCF-7	breast:
5	chr4:143371522..143373447-chr4:143534155..143537026,2	MCF-7	breast:
6	chr4:143388945..143399475-chr4:143525396..143540220,51	MCF-7	breast:
7	chr11:8506706..8507606-chr4:143536248..143536811,2	MCF-7	breast:
8	chr4:143536204..143537085-chr4:143957648..143958196,3	MCF-7	breast:
9	chr4:143520357..143522520-chr4:143535203..143538604,3	MCF-7	breast:
10	chr4:143451651..143452601-chr4:143536185..143537147,3	MCF-7	breast:
11	chr4:143469254..143471063-chr4:143535925..143538743,3	MCF-7	breast:
12	chr4:143517546..143521080-chr4:143535706..143539870,4	MCF-7	breast:
13	chr4:143503728..143505235-chr4:143534776..143536834,2	MCF-7	breast:
14	chr4:143387939..143398265-chr4:143528932..143544358,55	MCF-7	breast:
15	chr4:143535273..143539133-chr4:143641663..143644812,3	MCF-7	breast:
16	chr4:143535588..143538325-chr4:143625041..143627552,2	MCF-7	breast:
17	chr4:143521828..143522757-chr4:143536158..143537238,4	MCF-7	breast:
18	chr4:143535438..143537079-chr4:143616792..143619386,2	MCF-7	breast:

No data

Variant related genes	Relation type
ENSG00000109452	Chromatin interaction

Extended variants
information (count: 56 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:53)

rs_ID	r²[population]
rs1031104	0.91[ASN][1000 genomes]
rs10857397	0.85[AMR][1000 genomes];0.90[ASN][1000 genomes]
rs1116690	0.91[AFR][1000 genomes];0.95[AMR][1000 genomes];0.93[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs11723809	0.88[AMR][1000 genomes];0.81[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs11943397	0.83[ASN][1000 genomes]
rs11944455	0.87[AMR][1000 genomes];0.90[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs12233703	0.84[ASN][1000 genomes]
rs12500698	0.88[AMR][1000 genomes];0.84[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs12508480	0.86[ASN][1000 genomes]
rs13102191	0.88[AMR][1000 genomes];0.90[ASN][1000 genomes]
rs13109603	0.88[AFR][1000 genomes];0.91[AMR][1000 genomes];0.91[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs13109664	0.88[AFR][1000 genomes];0.91[AMR][1000 genomes];0.91[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs13114452	0.90[ASN][1000 genomes]
rs13119090	0.82[AFR][1000 genomes];0.90[AMR][1000 genomes];0.91[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs13125362	0.80[AFR][1000 genomes];0.82[AMR][1000 genomes];0.81[ASN][1000 genomes]
rs13125853	0.88[ASN][1000 genomes]
rs13133181	0.84[AMR][1000 genomes];0.83[ASN][1000 genomes]
rs1364921	0.97[AMR][1000 genomes];0.89[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs1364922	0.87[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1364923	0.86[AFR][1000 genomes]
rs1364925	0.83[AFR][1000 genomes];0.88[AMR][1000 genomes];0.90[ASN][1000 genomes]
rs1373041	0.88[AMR][1000 genomes];0.86[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs1443187	0.86[ASN][1000 genomes]
rs1443188	0.83[ASN][1000 genomes]
rs1443191	0.84[AFR][1000 genomes];0.94[AMR][1000 genomes];0.90[ASN][1000 genomes]
rs1473222	0.80[AMR][1000 genomes]
rs1899565	0.83[ASN][1000 genomes]
rs1961836	0.84[ASN][1000 genomes]
rs2017146	0.92[AMR][1000 genomes];0.92[ASN][1000 genomes]
rs2083781	0.81[AFR][1000 genomes];0.83[AMR][1000 genomes];0.87[ASN][1000 genomes]
rs2120158	0.83[ASN][1000 genomes]
rs2165820	0.80[AMR][1000 genomes];0.90[ASN][1000 genomes]
rs2197216	0.81[AMR][1000 genomes];0.89[ASN][1000 genomes]
rs2217017	0.83[AFR][1000 genomes];0.88[AMR][1000 genomes];0.90[ASN][1000 genomes]
rs2874870	0.85[AFR][1000 genomes];0.92[AMR][1000 genomes];0.82[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs2874871	0.81[AFR][1000 genomes];0.88[AMR][1000 genomes];0.90[ASN][1000 genomes]
rs4975311	0.88[AMR][1000 genomes]
rs6537123	0.90[AMR][1000 genomes];0.90[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs6830053	0.91[ASN][1000 genomes]
rs6830886	0.88[AMR][1000 genomes];0.84[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs6831966	0.83[AFR][1000 genomes];0.87[AMR][1000 genomes];0.86[ASN][1000 genomes]
rs6839894	0.90[AFR][1000 genomes];0.99[AMR][1000 genomes];0.95[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs7434705	0.82[AFR][1000 genomes];0.90[AMR][1000 genomes];0.90[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs7437824	0.86[ASN][1000 genomes]
rs7441478	0.92[AMR][1000 genomes];0.88[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs7680076	0.83[AFR][1000 genomes];0.90[AMR][1000 genomes];0.91[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs7680631	0.91[ASN][1000 genomes]
rs7685086	0.83[ASN][1000 genomes]
rs7695514	0.90[AMR][1000 genomes];0.90[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs7698691	0.84[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs978361	0.83[ASN][1000 genomes]
rs979194	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs979195	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][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	nsv461660	chr4:143437219-143538179	Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats Active TSS Strong transcription Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
2	nsv595605	chr4:143437219-143538179	Weak transcription Enhancers Flanking Active TSS Active TSS Genic enhancers Strong transcription ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
3	nsv830101	chr4:143518810-143684392	ZNF genes & repeats Enhancers Flanking Active TSS Weak transcription Strong transcription Bivalent Enhancer Genic enhancers Transcr. at gene 5' and 3' Active TSS	Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:25 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr4:143517400-143539400	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
2	chr4:143531200-143538600	Weak transcription	Primary T helper naive cells from peripheral blood	blood
3	chr4:143531800-143536800	Weak transcription	Left Ventricle	heart
4	chr4:143532600-143540200	Weak transcription	Primary T killer memory cells from peripheral blood	blood
5	chr4:143533800-143536600	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
6	chr4:143534000-143537800	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
7	chr4:143534000-143538400	Weak transcription	Primary hematopoietic stem cells	blood
8	chr4:143534000-143538600	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
9	chr4:143534200-143538600	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
10	chr4:143534400-143536400	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
11	chr4:143534800-143537000	Enhancers	Hela-S3	cervix
12	chr4:143534800-143537200	Enhancers	Muscle Satellite Cultured Cells	--
13	chr4:143535000-143536800	Enhancers	NHDF-Ad	bronchial
14	chr4:143535000-143537000	Enhancers	NHEK	skin
15	chr4:143535200-143536800	Enhancers	NHLF	lung
16	chr4:143535200-143537000	Enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin
17	chr4:143535200-143537200	Enhancers	NH-A	brain
18	chr4:143535200-143537400	Enhancers	A549	lung
19	chr4:143535400-143536400	Weak transcription	HMEC	breast
20	chr4:143535600-143536600	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
21	chr4:143535800-143536600	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
22	chr4:143535800-143536800	Weak transcription	Osteobl	bone
23	chr4:143536000-143536800	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
24	chr4:143536000-143537400	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
25	chr4:143536200-143536600	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--

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