Variant report

Variant	rs9370540
Chromosome Location	chr6:56460958-56460959
allele	A/C
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr6:56223651..56224750-chr6:56459827..56460973,4	MCF-7	breast:
2	chr6:56223388..56224639-chr6:56460054..56461055,4	K562	blood:
3	chr6:56226194..56226836-chr6:56460519..56461261,2	MCF-7	breast:

Extended variants
information (count: 62 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:60)

rs_ID	r²[population]
rs1014309	0.82[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs1014310	0.82[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs10484858	0.88[AFR][1000 genomes];0.97[AMR][1000 genomes];0.94[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs11751914	0.84[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs11969402	0.83[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs12195236	0.84[AMR][1000 genomes];0.93[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs12200301	0.84[AMR][1000 genomes];0.88[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs13194995	0.81[AMR][1000 genomes];0.88[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs13209548	0.84[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs16888055	0.89[AFR][1000 genomes];0.84[AMR][1000 genomes];0.88[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs1884286	0.80[AMR][1000 genomes]
rs2024751	0.95[AMR][1000 genomes];0.95[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs2144405	0.81[EUR][1000 genomes]
rs34049027	0.90[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs34237663	0.90[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs36017808	0.82[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs4712135	0.81[EUR][1000 genomes]
rs4712136	0.83[AMR][1000 genomes];0.85[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs4712137	0.91[AMR][1000 genomes];0.93[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs4712138	0.90[AFR][1000 genomes];0.97[AMR][1000 genomes];0.94[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs4715635	0.95[AMR][1000 genomes];0.96[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs6459166	0.84[AMR][1000 genomes];0.89[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs6919941	0.96[ASN][1000 genomes]
rs6921099	0.91[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs6926648	0.81[EUR][1000 genomes]
rs6929091	0.83[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs6931836	0.87[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs71564846	0.93[AMR][1000 genomes];0.87[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs7747060	0.80[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs7772239	0.85[AMR][1000 genomes];0.88[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs9349829	0.83[AMR][1000 genomes]
rs9349831	0.95[AMR][1000 genomes];0.96[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs9349832	0.84[AMR][1000 genomes];0.88[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs9349835	0.84[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs9349836	0.93[AMR][1000 genomes];0.94[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs9357927	0.93[AMR][1000 genomes];0.98[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs9367689	0.80[AMR][1000 genomes]
rs9367690	0.83[EUR][1000 genomes]
rs9370538	0.85[AMR][1000 genomes];0.90[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs9370539	0.96[ASN][1000 genomes]
rs9370541	0.99[AFR][1000 genomes];0.88[AMR][1000 genomes];0.94[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs9370542	0.83[AMR][1000 genomes];0.89[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs9370543	0.89[AFR][1000 genomes];0.87[AMR][1000 genomes];0.94[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs9370544	0.88[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs9382645	0.85[EUR][1000 genomes]
rs9382650	0.96[ASN][1000 genomes]
rs9382652	0.93[AMR][1000 genomes];0.97[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs9382653	0.91[AFR][1000 genomes];0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs9382654	0.91[AFR][1000 genomes];0.99[AMR][1000 genomes];0.98[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs9382655	0.91[AFR][1000 genomes];0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs9382656	0.82[AMR][1000 genomes];0.94[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs9382658	0.84[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs9382659	0.95[AMR][1000 genomes];0.99[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs9396221	0.82[AMR][1000 genomes]
rs9396222	0.85[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs9396224	0.82[AMR][1000 genomes];0.85[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs9396225	0.86[ASN][1000 genomes]
rs9396228	0.92[AMR][1000 genomes];0.99[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs9475723	0.81[EUR][1000 genomes]
rs9689355	0.85[AMR][1000 genomes];0.88[EUR][1000 genomes];0.90[ASN][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	nsv491933	chr6:56177722-57171010	Active TSS Enhancers Strong transcription Weak transcription Genic enhancers Flanking Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	51 gene(s)	inside rSNPs	diseases
2	nsv934026	chr6:56382056-57184218	Flanking Bivalent TSS/Enh Strong transcription Weak transcription Enhancers Transcr. at gene 5' and 3' Flanking Active TSS Genic enhancers Bivalent/Poised TSS Active TSS ZNF genes & repeats Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	49 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:100 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:56408200-56496000	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
2	chr6:56417000-56516400	Weak transcription	Pancreas	Pancrea
3	chr6:56417200-56462000	Weak transcription	Lung	lung
4	chr6:56417200-56481400	Weak transcription	Esophagus	oesophagus
5	chr6:56432800-56513600	Weak transcription	Small Intestine	intestine
6	chr6:56436400-56464800	Weak transcription	Fetal Brain Male	brain
7	chr6:56440800-56465800	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
8	chr6:56441000-56524800	Weak transcription	Colonic Mucosa	Colon
9	chr6:56441600-56465600	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
10	chr6:56451800-56514200	Weak transcription	Primary hematopoietic stem cells	blood
11	chr6:56452200-56514600	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
12	chr6:56452800-56469200	Strong transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
13	chr6:56452800-56470000	Strong transcription	Ganglion Eminence derived primary cultured neurospheres	brain
14	chr6:56452800-56476000	Strong transcription	H9 Derived Neuron Cultured Cells	ES cell derived
15	chr6:56452800-56489400	Strong transcription	Liver	Liver
16	chr6:56453000-56468800	Strong transcription	iPS-18 Cell Line	embryonic stem cell
17	chr6:56453000-56469000	Strong transcription	iPS-20b Cell Line	embryonic stem cell
18	chr6:56453000-56469000	Strong transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
19	chr6:56453000-56469200	Strong transcription	Fetal Intestine Large	intestine
20	chr6:56453000-56469800	Strong transcription	NH-A	brain
21	chr6:56453000-56492000	Strong transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
22	chr6:56453000-56502200	Strong transcription	Muscle Satellite Cultured Cells	--
23	chr6:56453000-56506800	Strong transcription	HSMM	muscle
24	chr6:56453200-56470000	Strong transcription	HUES6 Cell Line	embryonic stem cell
25	chr6:56453400-56469200	Strong transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
26	chr6:56453400-56476200	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
27	chr6:56453800-56469000	Strong transcription	HUES48 Cell Line	embryonic stem cell
28	chr6:56453800-56470800	Strong transcription	HUES64 Cell Line	embryonic stem cell
29	chr6:56454200-56467400	Strong transcription	HMEC	breast
30	chr6:56455400-56462000	Strong transcription	Fetal Intestine Small	intestine
31	chr6:56455400-56462000	Strong transcription	Fetal Stomach	stomach
32	chr6:56455400-56463200	Strong transcription	Skeletal Muscle Male	skeletal muscle
33	chr6:56455400-56476000	Strong transcription	Skeletal Muscle Female	skeletal muscle
34	chr6:56455400-56486200	Strong transcription	HSMMtube	muscle
35	chr6:56455800-56464600	Weak transcription	Gastric	stomach
36	chr6:56455800-56465800	Weak transcription	Sigmoid Colon	Sigmoid Colon
37	chr6:56456400-56461200	Weak transcription	Cortex derived primary cultured neurospheres	brain
38	chr6:56457000-56461600	Weak transcription	Colon Smooth Muscle	Colon
39	chr6:56457000-56468000	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
40	chr6:56457000-56468000	Weak transcription	Psoas Muscle	Psoas
41	chr6:56457200-56461400	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
42	chr6:56457200-56473200	Weak transcription	Aorta	Aorta
43	chr6:56457200-56478200	Weak transcription	Fetal Heart	heart
44	chr6:56457200-56501200	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
45	chr6:56457400-56463600	Genic enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
46	chr6:56457400-56465200	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
47	chr6:56458200-56463000	Strong transcription	Fetal Muscle Trunk	muscle
48	chr6:56458400-56462000	Strong transcription	Right Ventricle	heart
49	chr6:56458600-56462800	Strong transcription	Fetal Muscle Leg	muscle
50	chr6:56458800-56461600	Weak transcription	Fetal Brain Female	brain

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