Variant report

Variant	rs13161109
Chromosome Location	chr5:127301432-127301433
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr5:127261908..127263560-chr5:127300086..127302066,2	MCF-7	breast:
2	chr5:127298909..127302404-chr5:127418523..127420285,3	MCF-7	breast:
3	chr5:127293170..127295868-chr5:127299899..127303794,5	MCF-7	breast:
4	chr5:127297981..127299833-chr5:127300238..127305210,4	MCF-7	breast:
5	chr5:127296445..127298165-chr5:127301266..127303118,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000245937	Chromatin interaction
ENSG00000064651	Chromatin interaction

Extended variants
information (count: 63 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:61)

rs_ID	r²[population]
rs10040931	0.93[AFR][1000 genomes];0.88[EUR][1000 genomes]
rs10041355	0.80[EUR][1000 genomes]
rs10041388	0.80[EUR][1000 genomes]
rs10052149	0.93[EUR][1000 genomes]
rs10055964	0.93[EUR][1000 genomes]
rs10057048	0.93[EUR][1000 genomes]
rs10059403	0.92[EUR][1000 genomes]
rs10076010	0.92[EUR][1000 genomes]
rs1013374	0.83[EUR][1000 genomes]
rs1013375	0.83[EUR][1000 genomes]
rs10463835	0.87[EUR][1000 genomes]
rs10463836	0.87[EUR][1000 genomes]
rs10478786	0.82[EUR][1000 genomes]
rs10478787	0.82[EUR][1000 genomes]
rs10478788	0.93[EUR][1000 genomes]
rs10478790	0.92[EUR][1000 genomes]
rs10478791	0.87[EUR][1000 genomes]
rs10478792	0.87[EUR][1000 genomes]
rs10519968	0.87[EUR][1000 genomes]
rs10519977	0.87[EUR][1000 genomes]
rs11745009	0.83[EUR][1000 genomes]
rs11745023	0.93[AFR][1000 genomes];0.88[EUR][1000 genomes]
rs12523625	0.83[EUR][1000 genomes]
rs13154863	0.88[EUR][1000 genomes]
rs13169878	0.84[EUR][1000 genomes]
rs13174053	0.82[EUR][1000 genomes]
rs13177354	0.93[EUR][1000 genomes]
rs13180050	0.82[EUR][1000 genomes]
rs13184942	0.87[EUR][1000 genomes]
rs1558149	0.82[EUR][1000 genomes]
rs17606751	0.93[EUR][1000 genomes]
rs2108652	0.93[EUR][1000 genomes]
rs2108654	0.82[EUR][1000 genomes]
rs2409038	0.81[EUR][1000 genomes]
rs2409039	0.81[EUR][1000 genomes]
rs2898077	0.81[EUR][1000 genomes]
rs34498802	0.89[EUR][1000 genomes]
rs35673135	0.84[EUR][1000 genomes]
rs35713319	0.92[EUR][1000 genomes]
rs4835934	0.82[EUR][1000 genomes]
rs4836352	0.87[EUR][1000 genomes]
rs59634534	0.82[EUR][1000 genomes]
rs6867103	0.92[EUR][1000 genomes]
rs6867442	0.92[EUR][1000 genomes]
rs6867465	0.92[EUR][1000 genomes]
rs6867644	0.92[EUR][1000 genomes]
rs6881456	0.81[EUR][1000 genomes]
rs6889393	0.92[EUR][1000 genomes]
rs6892704	0.82[EUR][1000 genomes]
rs6897353	0.87[EUR][1000 genomes]
rs732235	0.82[EUR][1000 genomes]
rs732236	0.82[EUR][1000 genomes]
rs7444438	0.86[EUR][1000 genomes]
rs768528	0.85[EUR][1000 genomes]
rs7711776	0.87[EUR][1000 genomes]
rs7713606	0.83[EUR][1000 genomes]
rs7717705	0.84[EUR][1000 genomes]
rs7732912	0.90[EUR][1000 genomes]
rs9327460	0.92[EUR][1000 genomes]
rs9327461	0.92[EUR][1000 genomes]
rs9327462	0.87[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:2 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1033607	chr5:126385181-127304459	Weak transcription Enhancers Flanking Active TSS Active TSS Strong transcription ZNF genes & repeats 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	25 gene(s)	inside rSNPs	diseases
2	nsv1021483	chr5:126927834-127304873	Enhancers Weak transcription Flanking Active TSS Bivalent Enhancer Active TSS ZNF genes & repeats Strong transcription Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:67 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr5:127285800-127303800	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
2	chr5:127290600-127332000	Weak transcription	Aorta	Aorta
3	chr5:127292800-127314400	Weak transcription	Pancreas	Pancrea
4	chr5:127293200-127301800	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
5	chr5:127293200-127301800	Weak transcription	Ovary	ovary
6	chr5:127293200-127303600	Weak transcription	Esophagus	oesophagus
7	chr5:127293600-127301800	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
8	chr5:127294400-127302800	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
9	chr5:127295600-127302600	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
10	chr5:127295600-127304400	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
11	chr5:127295800-127301800	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
12	chr5:127295800-127322800	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
13	chr5:127296000-127301800	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
14	chr5:127296200-127301800	Weak transcription	Fetal Stomach	stomach
15	chr5:127296200-127303000	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
16	chr5:127296200-127303800	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
17	chr5:127296200-127304800	Weak transcription	Brain Substantia Nigra	brain
18	chr5:127296200-127306000	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
19	chr5:127296200-127307200	Weak transcription	NHLF	lung
20	chr5:127296200-127322600	Weak transcription	Colon Smooth Muscle	Colon
21	chr5:127296400-127301800	Weak transcription	Primary monocytes fromperipheralblood	blood
22	chr5:127296400-127301800	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
23	chr5:127296400-127302800	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
24	chr5:127296400-127302800	Weak transcription	Colonic Mucosa	Colon
25	chr5:127296400-127302800	Weak transcription	HMEC	breast
26	chr5:127296400-127302800	Weak transcription	NHEK	skin
27	chr5:127296400-127303000	Weak transcription	Muscle Satellite Cultured Cells	--
28	chr5:127296400-127303800	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
29	chr5:127296400-127304000	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
30	chr5:127296400-127304200	Weak transcription	Primary T helper cells fromperipheralblood	blood
31	chr5:127296400-127304800	Weak transcription	Cortex derived primary cultured neurospheres	brain
32	chr5:127296400-127304800	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
33	chr5:127296400-127305200	Weak transcription	Brain Anterior Caudate	brain
34	chr5:127296400-127306400	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
35	chr5:127297000-127301800	Weak transcription	A549	lung
36	chr5:127297000-127305200	Weak transcription	Brain Hippocampus Middle	brain
37	chr5:127297600-127302800	Weak transcription	Breast Myoepithelial Primary Cells	Breast
38	chr5:127297600-127303000	Weak transcription	Thymus	Thymus
39	chr5:127297600-127304600	Weak transcription	Stomach Smooth Muscle	stomach
40	chr5:127297600-127313200	Weak transcription	Duodenum Smooth Muscle	Duodenum
41	chr5:127297600-127332000	Weak transcription	Primary B cells from cord blood	blood
42	chr5:127297800-127301800	Weak transcription	Primary T cells from cord blood	blood
43	chr5:127297800-127301800	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
44	chr5:127297800-127301800	Weak transcription	Fetal Muscle Leg	muscle
45	chr5:127297800-127304000	Weak transcription	Primary B cells from peripheral blood	blood
46	chr5:127297800-127306400	Weak transcription	Psoas Muscle	Psoas
47	chr5:127297800-127306400	Weak transcription	Right Atrium	heart
48	chr5:127297800-127323200	Weak transcription	Gastric	stomach
49	chr5:127297800-127323600	Weak transcription	HSMMtube	muscle
50	chr5:127297800-127358400	Weak transcription	Primary hematopoietic stem cells	blood

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