Variant report

Variant	rs10838602
Chromosome Location	chr11:46524472-46524473
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr11:46499318..46501948-chr11:46523167..46525991,2	MCF-7	breast:
2	chr11:46524118..46526441-chr11:46533359..46535201,2	K562	blood:
3	chr11:46515454..46518116-chr11:46522348..46525418,3	K562	blood:

Variant related genes	Relation type
ENSG00000110497	Chromatin interaction

Extended variants
information (count: 104 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:99)

rs_ID	r²[population]
rs10160701	0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11038897	0.96[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs11038900	0.98[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs11038906	0.88[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11038914	0.80[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11038919	0.90[AMR][1000 genomes];0.95[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs11038927	0.92[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs11819869	0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12272795	0.80[AFR][1000 genomes];1.00[AMR][1000 genomes];0.95[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs12283172	0.84[AMR][1000 genomes];0.96[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs12292425	0.85[AMR][1000 genomes];0.92[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs12295266	0.87[AMR][1000 genomes];0.93[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs12573978	0.89[AFR][1000 genomes];0.97[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12574250	0.82[AMR][1000 genomes];0.96[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs12574668	0.93[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs12575519	0.94[EUR][1000 genomes]
rs12576115	0.92[EUR][1000 genomes]
rs12576317	0.84[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12576359	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12577142	0.94[EUR][1000 genomes]
rs12578042	0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1472001	0.87[AFR][1000 genomes];0.87[AMR][1000 genomes];0.98[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs1489192	0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs16938506	0.96[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs17197116	0.97[ASN][1000 genomes]
rs2046768	0.96[EUR][1000 genomes]
rs2067482	0.96[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs2171667	0.81[AMR][1000 genomes];0.96[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs2171668	0.81[AMR][1000 genomes];0.96[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs2279465	0.96[EUR][1000 genomes]
rs2291487	0.96[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs2864072	0.85[AMR][1000 genomes];0.96[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs2864076	0.96[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs2902858	0.86[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs34406563	0.93[EUR][1000 genomes]
rs35324223	0.83[EUR][1000 genomes]
rs35623865	0.83[AMR][1000 genomes];0.89[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs3740974	0.96[EUR][1000 genomes]
rs3740977	0.95[EUR][1000 genomes]
rs3802888	0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4307676	0.87[EUR][1000 genomes]
rs55657382	0.90[AMR][1000 genomes];0.91[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs55661562	0.91[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs55750336	0.97[ASN][1000 genomes]
rs55896955	0.80[EUR][1000 genomes]
rs57535407	0.88[AFR][1000 genomes];0.97[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs58147945	0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs59319338	0.93[EUR][1000 genomes]
rs60722866	0.81[AMR][1000 genomes];0.86[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs60932698	0.90[AMR][1000 genomes];0.89[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs61882674	0.80[EUR][1000 genomes]
rs61882678	0.88[EUR][1000 genomes]
rs61882682	0.94[EUR][1000 genomes]
rs61882683	0.92[EUR][1000 genomes]
rs61882691	0.94[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs61882701	0.81[AFR][1000 genomes];0.84[AMR][1000 genomes];0.96[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs61882702	0.96[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs61882706	0.95[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs61882709	0.96[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs61882710	0.82[AMR][1000 genomes];0.96[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs61882711	0.82[AMR][1000 genomes];0.96[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs61882712	0.98[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs61882720	0.87[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs61882743	0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs61882746	0.90[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs61882748	0.95[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs61882750	0.85[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs61882756	0.91[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs61882757	0.90[AMR][1000 genomes];0.93[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs61882758	0.83[AMR][1000 genomes];0.93[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs61884262	0.90[AMR][1000 genomes];0.85[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs61884264	0.81[AMR][1000 genomes];0.89[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs61884271	0.89[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs61884273	0.87[EUR][1000 genomes]
rs61884274	0.87[EUR][1000 genomes]
rs61884292	0.80[EUR][1000 genomes]
rs6485682	0.96[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs6485685	0.90[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs7108770	0.87[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs7112229	1.00[AFR][1000 genomes];0.90[AMR][1000 genomes];0.98[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs7122039	0.81[AMR][1000 genomes];0.90[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs7125907	0.90[AMR][1000 genomes];0.92[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs7126316	0.86[EUR][1000 genomes]
rs7126343	0.87[EUR][1000 genomes]
rs7127529	0.85[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7128092	0.86[EUR][1000 genomes]
rs7130141	0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73449983	0.85[AMR][1000 genomes];0.93[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs7481312	0.90[AMR][1000 genomes];0.94[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs7484002	0.85[AMR][1000 genomes];0.91[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs756343	0.97[ASN][1000 genomes]
rs7924401	0.90[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs7930103	0.87[AFR][1000 genomes];0.87[AMR][1000 genomes];0.98[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs7932866	0.95[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs7936413	0.96[EUR][1000 genomes]
rs7946705	0.96[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs7951579	0.96[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs7951870	0.95[EUR][1000 genomes]
rs876701	0.89[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:5 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1044225	chr11:46472580-46771102	Enhancers Strong transcription Weak transcription Genic enhancers Flanking Active TSS Active TSS Transcr. at gene 5' and 3' Bivalent/Poised TSS ZNF genes & repeats Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	34 gene(s)	inside rSNPs	diseases
2	nsv541030	chr11:46472580-46771102	Weak transcription Strong transcription Genic enhancers Enhancers Active TSS Flanking Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	34 gene(s)	inside rSNPs	diseases
3	nsv1046990	chr11:46501436-46669636	Active TSS Weak transcription Strong transcription Enhancers Flanking Active TSS Genic enhancers Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	18 gene(s)	inside rSNPs	diseases
4	nsv541031	chr11:46501436-46669636	Flanking Active TSS Enhancers Weak transcription Strong transcription Active TSS Genic enhancers Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	18 gene(s)	inside rSNPs	diseases
5	nsv897321	chr11:46515902-46673344	Enhancers Weak transcription Strong transcription ZNF genes & repeats Active TSS Flanking Active TSS Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	18 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:124 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr11:46479000-46525600	Weak transcription	Lung	lung
2	chr11:46486200-46525800	Weak transcription	Fetal Brain Female	brain
3	chr11:46490200-46525800	Weak transcription	Aorta	Aorta
4	chr11:46497600-46537600	Weak transcription	A549	lung
5	chr11:46503400-46563000	Weak transcription	Placenta Amnion	Placenta Amnion
6	chr11:46505000-46526800	Weak transcription	H9 Cell Line	embryonic stem cell
7	chr11:46506600-46526400	Weak transcription	NHLF	lung
8	chr11:46507800-46529600	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
9	chr11:46507800-46529600	Weak transcription	Stomach Mucosa	stomach
10	chr11:46508200-46525600	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
11	chr11:46509600-46537200	Strong transcription	Primary T cells from cord blood	blood
12	chr11:46510400-46526800	Weak transcription	iPS-15b Cell Line	embryonic stem cell
13	chr11:46512400-46527400	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
14	chr11:46512800-46526800	Weak transcription	H1 Cell Line	embryonic stem cell
15	chr11:46513600-46529200	Weak transcription	Brain Germinal Matrix	brain
16	chr11:46513800-46525800	Weak transcription	Pancreas	Pancrea
17	chr11:46513800-46527400	Weak transcription	Colonic Mucosa	Colon
18	chr11:46513800-46527600	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
19	chr11:46514000-46525600	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
20	chr11:46514200-46526400	Weak transcription	Muscle Satellite Cultured Cells	--
21	chr11:46514200-46535000	Weak transcription	Small Intestine	intestine
22	chr11:46514400-46525600	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
23	chr11:46514800-46529400	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
24	chr11:46515000-46535000	Weak transcription	HUVEC	blood vessel
25	chr11:46515200-46524800	Weak transcription	Hela-S3	cervix
26	chr11:46515400-46524800	Weak transcription	Rectal Mucosa Donor 29	rectum
27	chr11:46515400-46526800	Weak transcription	Primary neutrophils fromperipheralblood	blood
28	chr11:46515600-46525000	Weak transcription	Sigmoid Colon	Sigmoid Colon
29	chr11:46515600-46525600	Weak transcription	Cortex derived primary cultured neurospheres	brain
30	chr11:46515600-46526600	Weak transcription	NH-A	brain
31	chr11:46515800-46525600	Weak transcription	HUES6 Cell Line	embryonic stem cell
32	chr11:46515800-46525800	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
33	chr11:46515800-46526000	Weak transcription	iPS-20b Cell Line	embryonic stem cell
34	chr11:46515800-46526000	Weak transcription	HSMM	muscle
35	chr11:46515800-46527400	Weak transcription	Esophagus	oesophagus
36	chr11:46515800-46527600	Weak transcription	Rectal Smooth Muscle	rectum
37	chr11:46515800-46529400	Weak transcription	Gastric	stomach
38	chr11:46515800-46529400	Weak transcription	Ovary	ovary
39	chr11:46515800-46537600	Weak transcription	NHDF-Ad	bronchial
40	chr11:46516000-46524600	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
41	chr11:46516000-46525000	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
42	chr11:46516000-46525000	Weak transcription	Osteobl	bone
43	chr11:46516000-46525600	Weak transcription	Liver	Liver
44	chr11:46516000-46525800	Weak transcription	HUES48 Cell Line	embryonic stem cell
45	chr11:46516000-46529400	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
46	chr11:46516000-46529400	Weak transcription	Fetal Kidney	kidney
47	chr11:46516200-46525600	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
48	chr11:46516200-46527600	Weak transcription	ES-I3 Cell Line	embryonic stem cell
49	chr11:46516200-46529200	Weak transcription	Primary T helper naive cells from peripheral blood	blood
50	chr11:46516400-46524800	Weak transcription	iPS-18 Cell Line	embryonic stem cell

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