Variant report

Variant	rs9838425
Chromosome Location	chr3:157936225-157936226
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr3:157919172..157921110-chr3:157935247..157936835,2	MCF-7	breast:
2	chr3:157935014..157937097-chr3:157940736..157943383,2	K562	blood:
3	chr3:157930356..157934544-chr3:157935116..157938081,3	MCF-7	breast:

Variant related genes	Relation type
ENSG00000174891	Chromatin interaction

Extended variants
information (count: 73 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:66)

rs_ID	r²[population]
rs10049160	0.82[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs12330339	1.00[EUR][1000 genomes]
rs13321065	1.00[EUR][1000 genomes]
rs13322986	1.00[EUR][1000 genomes]
rs13323462	1.00[EUR][1000 genomes]
rs28396261	0.85[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs28402668	1.00[EUR][1000 genomes]
rs28428827	1.00[EUR][1000 genomes]
rs28506940	1.00[EUR][1000 genomes]
rs28608522	1.00[EUR][1000 genomes]
rs28646251	1.00[EUR][1000 genomes]
rs28680366	1.00[EUR][1000 genomes]
rs28720767	1.00[EUR][1000 genomes]
rs6441190	1.00[EUR][1000 genomes]
rs6441192	1.00[EUR][1000 genomes]
rs6762923	1.00[EUR][1000 genomes]
rs6765159	0.85[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs6767072	1.00[EUR][1000 genomes]
rs6776674	1.00[EUR][1000 genomes]
rs6784612	1.00[EUR][1000 genomes]
rs6784707	1.00[EUR][1000 genomes]
rs6787212	1.00[EUR][1000 genomes]
rs6798405	1.00[EUR][1000 genomes]
rs6804113	1.00[EUR][1000 genomes]
rs6809280	1.00[EUR][1000 genomes]
rs73013336	1.00[EUR][1000 genomes]
rs73017472	1.00[EUR][1000 genomes]
rs73025925	1.00[EUR][1000 genomes]
rs73025951	1.00[EUR][1000 genomes]
rs73027918	1.00[EUR][1000 genomes]
rs73028000	0.82[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs73028775	1.00[EUR][1000 genomes]
rs73028779	1.00[EUR][1000 genomes]
rs73029897	1.00[EUR][1000 genomes]
rs73029899	1.00[EUR][1000 genomes]
rs73031618	1.00[EUR][1000 genomes]
rs73031643	1.00[EUR][1000 genomes]
rs73031646	1.00[EUR][1000 genomes]
rs7613737	1.00[EUR][1000 genomes]
rs7621282	1.00[EUR][1000 genomes]
rs7622013	1.00[EUR][1000 genomes]
rs7627082	1.00[EUR][1000 genomes]
rs7633366	1.00[EUR][1000 genomes]
rs7638647	1.00[EUR][1000 genomes]
rs9817119	1.00[EUR][1000 genomes]
rs9821945	1.00[EUR][1000 genomes]
rs9824822	1.00[EUR][1000 genomes]
rs9829790	1.00[EUR][1000 genomes]
rs9840759	1.00[EUR][1000 genomes]
rs9841653	1.00[EUR][1000 genomes]
rs9843252	1.00[EUR][1000 genomes]
rs9851634	0.84[AFR][1000 genomes]
rs9852177	1.00[EUR][1000 genomes]
rs9852974	1.00[EUR][1000 genomes]
rs9858864	1.00[EUR][1000 genomes]
rs9861869	1.00[EUR][1000 genomes]
rs9869501	1.00[EUR][1000 genomes]
rs9870885	0.85[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs9872495	1.00[EUR][1000 genomes]
rs9872642	1.00[EUR][1000 genomes]
rs9873074	1.00[EUR][1000 genomes]
rs9877843	0.85[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs9877873	1.00[EUR][1000 genomes]
rs9878828	1.00[EUR][1000 genomes]
rs9882507	1.00[EUR][1000 genomes]
rs9884071	1.00[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:7 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1013391	chr3:157505943-158115553	Flanking Active TSS Bivalent/Poised TSS Weak transcription ZNF genes & repeats Enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh Strong transcription Active TSS Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	14 gene(s)	inside rSNPs	diseases
2	nsv536775	chr3:157505943-158115553	Enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh Weak transcription Genic enhancers Bivalent Enhancer Strong transcription ZNF genes & repeats Flanking Active TSS Active TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	14 gene(s)	inside rSNPs	diseases
3	nsv1002378	chr3:157715428-158673414	Flanking Active TSS Weak transcription Strong transcription Flanking Bivalent TSS/Enh Enhancers Bivalent Enhancer Bivalent/Poised TSS Active TSS Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	47 gene(s)	inside rSNPs	diseases
4	nsv829768	chr3:157832878-158012070	Weak transcription Strong transcription ZNF genes & repeats Enhancers Genic enhancers Flanking Active TSS Active TSS Bivalent Enhancer	TF binding region Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
5	nsv877689	chr3:157858930-158133307	Strong transcription ZNF genes & repeats Enhancers Active TSS Flanking Active TSS Weak transcription Genic enhancers Bivalent Enhancer	TF binding region Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
6	esv1819976	chr3:157923372-157945591	Weak transcription Enhancers Flanking Active TSS Strong transcription Bivalent Enhancer	Chromatin interactive region	1 gene(s)	inside rSNPs	n/a
7	nsv916910	chr3:157926799-158183372	Weak transcription Enhancers ZNF genes & repeats Active TSS Strong transcription Genic enhancers Flanking Active TSS Bivalent Enhancer	TF binding region Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:27 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:157914200-157984400	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
2	chr3:157918000-157938000	Weak transcription	Left Ventricle	heart
3	chr3:157919200-157958000	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
4	chr3:157919800-157952800	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
5	chr3:157920200-157957000	Weak transcription	Primary hematopoietic stem cells short term culture	blood
6	chr3:157921000-157937600	Weak transcription	Primary hematopoietic stem cells	blood
7	chr3:157921600-157936400	Weak transcription	Monocytes-CD14+_RO01746	blood
8	chr3:157922000-157950000	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
9	chr3:157926400-157938000	Weak transcription	Ovary	ovary
10	chr3:157927000-157945200	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
11	chr3:157927000-157952600	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
12	chr3:157927000-157968800	Weak transcription	Psoas Muscle	Psoas
13	chr3:157927600-157937600	Weak transcription	Primary B cells from cord blood	blood
14	chr3:157928200-157956200	Weak transcription	Primary B cells from peripheral blood	blood
15	chr3:157929000-157946800	Weak transcription	Dnd41	blood
16	chr3:157930600-157936400	Weak transcription	Breast Myoepithelial Primary Cells	Breast
17	chr3:157931000-157937600	Weak transcription	Stomach Mucosa	stomach
18	chr3:157933000-157936600	Weak transcription	Fetal Heart	heart
19	chr3:157933800-157957200	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
20	chr3:157934800-157938800	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
21	chr3:157935000-157951600	Weak transcription	K562	blood
22	chr3:157935400-157937000	Enhancers	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
23	chr3:157935600-157936400	Enhancers	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
24	chr3:157935600-157950000	Weak transcription	Thymus	Thymus
25	chr3:157935800-157955200	Weak transcription	Primary T helper cells PMA-I stimulated	--
26	chr3:157936000-157936800	Strong transcription	Primary monocytes fromperipheralblood	blood
27	chr3:157936000-157938200	Strong transcription	Primary T cells from cord blood	blood

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