Variant report

Variant	rs12338961
Chromosome Location	chr9:95638833-95638834
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr9:95630407..95632096-chr9:95638470..95640204,2	K562	blood:
2	chr9:95570373..95571952-chr9:95637590..95640500,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000187984	Chromatin interaction

Extended variants
information (count: 55 )
Associated
traits (count: 0)

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

rs_ID	r²[population]
rs10115872	0.99[AFR][1000 genomes];0.96[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10123843	0.99[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10123870	0.99[AFR][1000 genomes];0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs10156497	0.95[ASN][1000 genomes]
rs1022833	0.86[AMR][1000 genomes];0.84[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs10739932	0.88[AMR][1000 genomes];0.88[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs10739933	0.99[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10739934	0.99[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10739938	0.80[AMR][1000 genomes]
rs10761172	0.95[ASN][1000 genomes]
rs10761175	0.89[AMR][1000 genomes];0.91[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs10821021	0.95[ASN][1000 genomes]
rs10821022	0.95[ASN][1000 genomes]
rs10821027	0.82[EUR][1000 genomes]
rs10821028	0.95[ASN][1000 genomes]
rs10821030	0.99[AFR][1000 genomes];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10821031	0.98[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10821032	0.89[AMR][1000 genomes];0.92[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs10821035	0.99[AFR][1000 genomes];0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10821040	0.88[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs10992489	0.87[AMR][1000 genomes];0.91[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs10992529	0.88[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs12336022	0.94[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12337654	0.89[AMR][1000 genomes];0.91[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs12346689	0.82[AMR][1000 genomes];0.88[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs12379300	0.95[ASN][1000 genomes]
rs13288901	0.82[AMR][1000 genomes];0.88[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs28700150	0.92[ASN][1000 genomes]
rs36194652	0.86[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs3824428	0.95[ASN][1000 genomes]
rs4133033	0.88[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs4510923	0.88[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs4535796	0.87[ASN][1000 genomes]
rs4538949	0.87[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs4626670	0.88[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs4744150	0.96[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs4744151	0.91[AMR][1000 genomes];0.93[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs6479434	0.99[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7032277	0.99[AFR][1000 genomes];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7035868	0.86[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs7039812	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7040645	0.94[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs7045305	0.95[ASN][1000 genomes]
rs7047181	0.86[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs7847713	0.99[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7847998	0.95[ASN][1000 genomes]
rs7859380	0.82[EUR][1000 genomes]
rs7869480	0.95[ASN][1000 genomes]
rs7872848	0.87[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs7872987	0.87[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs7873021	0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7873954	0.81[EUR][1000 genomes]
rs7874026	0.89[AMR][1000 genomes];0.91[EUR][1000 genomes];1.00[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	nsv831654	chr9:95542920-95720961	ZNF genes & repeats Flanking Active TSS Active TSS Weak transcription Enhancers Strong transcription Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	19 gene(s)	inside rSNPs	diseases
2	nsv893574	chr9:95580376-95688099	Active TSS Weak transcription Strong transcription ZNF genes & repeats Enhancers Flanking Active TSS Bivalent Enhancer Genic enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	13 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:122 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:95609000-95639800	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
2	chr9:95616200-95639800	Weak transcription	H9 Cell Line	embryonic stem cell
3	chr9:95616400-95639800	Weak transcription	Small Intestine	intestine
4	chr9:95616600-95639600	Weak transcription	Placenta Amnion	Placenta Amnion
5	chr9:95618200-95639800	Weak transcription	Colonic Mucosa	Colon
6	chr9:95622600-95639000	Weak transcription	iPS-15b Cell Line	embryonic stem cell
7	chr9:95622600-95639000	Weak transcription	Rectal Smooth Muscle	rectum
8	chr9:95622600-95639000	Weak transcription	NH-A	brain
9	chr9:95622600-95639400	Weak transcription	HSMMtube	muscle
10	chr9:95622600-95639600	Weak transcription	Fetal Kidney	kidney
11	chr9:95622600-95639800	Weak transcription	Aorta	Aorta
12	chr9:95623200-95639000	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
13	chr9:95623200-95639400	Weak transcription	H1 Cell Line	embryonic stem cell
14	chr9:95623600-95639200	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
15	chr9:95625600-95639600	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
16	chr9:95628200-95639800	Weak transcription	Right Atrium	heart
17	chr9:95630600-95639400	Weak transcription	Primary neutrophils fromperipheralblood	blood
18	chr9:95630600-95639600	Weak transcription	Liver	Liver
19	chr9:95631000-95639400	Weak transcription	Brain Hippocampus Middle	brain
20	chr9:95631000-95639400	Weak transcription	Skeletal Muscle Female	skeletal muscle
21	chr9:95631000-95639600	Weak transcription	Rectal Mucosa Donor 31	rectum
22	chr9:95631200-95639600	Weak transcription	Skeletal Muscle Male	skeletal muscle
23	chr9:95631200-95639800	Weak transcription	Placenta	Placenta
24	chr9:95631400-95639800	Weak transcription	Fetal Muscle Trunk	muscle
25	chr9:95631800-95639600	Weak transcription	Primary B cells from peripheral blood	blood
26	chr9:95633200-95639000	Weak transcription	Rectal Mucosa Donor 29	rectum
27	chr9:95633200-95639200	Weak transcription	Primary hematopoietic stem cells	blood
28	chr9:95633200-95639400	Weak transcription	Primary hematopoietic stem cells short term culture	blood
29	chr9:95633200-95639400	Weak transcription	Fetal Intestine Large	intestine
30	chr9:95633200-95639400	Weak transcription	Fetal Stomach	stomach
31	chr9:95633200-95639400	Weak transcription	Stomach Smooth Muscle	stomach
32	chr9:95633200-95639600	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
33	chr9:95633200-95639600	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
34	chr9:95633200-95639600	Weak transcription	Adipose Nuclei	Adipose
35	chr9:95633200-95639800	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
36	chr9:95633200-95639800	Weak transcription	Left Ventricle	heart
37	chr9:95633200-95639800	Weak transcription	Lung	lung
38	chr9:95633200-95639800	Weak transcription	Thymus	Thymus
39	chr9:95633400-95639400	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
40	chr9:95633400-95639600	Weak transcription	Fetal Thymus	thymus
41	chr9:95633400-95639800	Weak transcription	Fetal Intestine Small	intestine
42	chr9:95634200-95639400	Weak transcription	ES-I3 Cell Line	embryonic stem cell
43	chr9:95634200-95639400	Weak transcription	Fetal Muscle Leg	muscle
44	chr9:95634400-95639000	Weak transcription	A549	lung
45	chr9:95634400-95639400	Weak transcription	Monocytes-CD14+_RO01746	blood
46	chr9:95634400-95639600	Weak transcription	Primary monocytes fromperipheralblood	blood
47	chr9:95634400-95639600	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
48	chr9:95635000-95639600	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
49	chr9:95635000-95639800	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
50	chr9:95635600-95639400	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin

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