Variant report

Variant	rs35477458
Chromosome Location	chr2:99356124-99356125
allele	A/C
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr2:99344987..99348857-chr2:99353398..99358314,5	MCF-7	breast:

Variant related genes	Relation type
ENSG00000071073	Chromatin interaction

Extended variants
information (count: 37 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:33)

rs_ID	r²[population]
rs1016124	0.94[ASN][1000 genomes]
rs10166044	0.86[AMR][1000 genomes]
rs10174321	0.82[AMR][1000 genomes];0.83[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs10177696	0.89[ASN][1000 genomes]
rs10194177	0.89[ASN][1000 genomes]
rs10200288	0.96[AMR][1000 genomes];0.88[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs10210711	0.81[ASN][1000 genomes]
rs10496332	0.95[ASN][1000 genomes]
rs11123747	0.93[ASN][1000 genomes]
rs11123749	0.94[ASN][1000 genomes]
rs11885883	0.96[ASN][1000 genomes]
rs12471383	0.94[ASN][1000 genomes]
rs12615301	0.96[ASN][1000 genomes]
rs12993424	0.97[AFR][1000 genomes];0.97[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13391483	0.96[ASN][1000 genomes]
rs1514916	0.89[ASN][1000 genomes]
rs1517681	0.97[AMR][1000 genomes];0.90[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1913621	0.96[ASN][1000 genomes]
rs2013983	0.99[AFR][1000 genomes];0.97[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs28783173	0.94[ASN][1000 genomes]
rs34521960	0.94[AFR][1000 genomes];0.97[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs41445250	0.91[ASN][1000 genomes]
rs4851150	0.94[ASN][1000 genomes]
rs4851153	0.85[ASN][1000 genomes]
rs4851154	0.96[ASN][1000 genomes]
rs58666702	0.89[ASN][1000 genomes]
rs6712597	0.88[AMR][1000 genomes];0.83[ASN][1000 genomes]
rs6716514	0.82[AMR][1000 genomes];0.81[ASN][1000 genomes]
rs6740656	0.87[ASN][1000 genomes]
rs6743770	0.84[EUR][1000 genomes]
rs7420869	0.89[ASN][1000 genomes]
rs7558236	0.93[ASN][1000 genomes]
rs7599792	0.93[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	nsv1011278	chr2:99280928-99638376	Weak transcription Enhancers Genic enhancers Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh Flanking Active TSS Strong transcription Active TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	18 gene(s)	inside rSNPs	diseases
2	nsv535835	chr2:99280928-99638376	Enhancers Weak transcription Bivalent Enhancer Active TSS Flanking Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Strong transcription Bivalent/Poised TSS Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	18 gene(s)	inside rSNPs	diseases
3	nsv535837	chr2:99329084-99358356	Strong transcription Weak transcription Flanking Active TSS Enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh Active TSS Bivalent Enhancer ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
4	nsv535838	chr2:99335416-99358356	Flanking Bivalent TSS/Enh Weak transcription Flanking Active TSS Enhancers Strong transcription Active TSS ZNF genes & repeats Bivalent Enhancer Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:36 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr2:99348400-99367000	Weak transcription	Esophagus	oesophagus
2	chr2:99348600-99359200	Weak transcription	Aorta	Aorta
3	chr2:99348800-99360600	Weak transcription	Lung	lung
4	chr2:99349200-99357200	Enhancers	HepG2	liver
5	chr2:99351800-99356200	Enhancers	Primary T helper naive cells fromperipheralblood	blood
6	chr2:99351800-99356600	Weak transcription	Primary monocytes fromperipheralblood	blood
7	chr2:99351800-99356600	Enhancers	Primary T helper naive cells from peripheral blood	blood
8	chr2:99351800-99360400	Weak transcription	Rectal Mucosa Donor 29	rectum
9	chr2:99351800-99360600	Weak transcription	Rectal Mucosa Donor 31	rectum
10	chr2:99352800-99359000	Weak transcription	Placenta	Placenta
11	chr2:99352800-99360400	Weak transcription	Sigmoid Colon	Sigmoid Colon
12	chr2:99353200-99356800	Weak transcription	Monocytes-CD14+_RO01746	blood
13	chr2:99353400-99358000	Weak transcription	Pancreatic Islets	Pancreatic Islet
14	chr2:99353400-99359400	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
15	chr2:99353400-99360400	Weak transcription	HMEC	breast
16	chr2:99353600-99359400	Weak transcription	HUVEC	blood vessel
17	chr2:99354000-99359400	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
18	chr2:99354600-99359200	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
19	chr2:99354600-99359600	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
20	chr2:99354600-99364600	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
21	chr2:99354800-99360600	Weak transcription	Duodenum Mucosa	Duodenum
22	chr2:99354800-99364000	Weak transcription	Dnd41	blood
23	chr2:99355000-99359200	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
24	chr2:99355000-99359200	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
25	chr2:99355000-99362200	Weak transcription	Thymus	Thymus
26	chr2:99355200-99359200	Weak transcription	Gastric	stomach
27	chr2:99355200-99359400	Weak transcription	Primary T killer memory cells from peripheral blood	blood
28	chr2:99355200-99360800	Weak transcription	Small Intestine	intestine
29	chr2:99355600-99356600	Weak transcription	Pancreas	Pancrea
30	chr2:99355600-99359200	Weak transcription	Primary T cells fromperipheralblood	blood
31	chr2:99355600-99359600	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
32	chr2:99355800-99359200	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
33	chr2:99355800-99359200	Weak transcription	Primary T helper cells PMA-I stimulated	--
34	chr2:99355800-99359200	Weak transcription	Primary T helper cells fromperipheralblood	blood
35	chr2:99355800-99359400	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
36	chr2:99356000-99359400	Weak transcription	Primary T cells from cord blood	blood

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