Variant report

Variant	rs12203341
Chromosome Location	chr6:114372347-114372348
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr6:114291106..114293220-chr6:114370833..114373429,3	MCF-7	breast:
2	chr6:114370743..114373108-chr6:114379270..114381422,2	MCF-7	breast:

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-MARCKS-10	chr6:114369055-114374011	NONHSAT114598

Variant related genes	Relation type
ENSG00000228624	Chromatin interaction
ENSG00000196591	Chromatin interaction

Extended variants
information (count: 27 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:24)

rs_ID	r²[population]
rs10782177	0.87[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1157989	0.94[AMR][1000 genomes];0.99[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs11967410	0.94[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs11970460	0.91[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs12190983	0.94[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12201726	0.87[AMR][1000 genomes];0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12201804	0.88[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12207338	0.83[AMR][1000 genomes];0.95[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs12211751	0.87[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12211928	0.81[AMR][1000 genomes];0.95[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs12213853	0.95[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs17191369	0.93[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs1961955	0.94[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62418080	0.92[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7742134	1.00[ASN][1000 genomes]
rs7743208	0.87[AMR][1000 genomes];0.96[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs7753206	0.94[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7764690	0.87[AMR][1000 genomes];0.96[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs9320479	0.87[AMR][1000 genomes];0.96[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs9481418	0.95[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs9481421	0.89[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs9488328	0.91[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs9488329	0.91[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs9488334	0.89[EUR][1000 genomes];0.88[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:3 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1021774	chr6:114063971-114407280	Enhancers Active TSS Weak transcription Strong transcription Transcr. at gene 5' and 3' Flanking Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer Genic enhancers ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	60 gene(s)	inside rSNPs	diseases
2	nsv538422	chr6:114063971-114407280	Genic enhancers Enhancers Weak transcription Flanking Active TSS Strong transcription Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer Active TSS Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	60 gene(s)	inside rSNPs	diseases
3	nsv1024062	chr6:114311029-114679557	Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats Active TSS Bivalent/Poised TSS Strong transcription Flanking Bivalent TSS/Enh Bivalent Enhancer Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	59 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:17 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:114361200-114375200	Weak transcription	Aorta	Aorta
2	chr6:114363600-114376600	Weak transcription	Brain Angular Gyrus	brain
3	chr6:114363800-114376400	Weak transcription	Brain Hippocampus Middle	brain
4	chr6:114363800-114385000	Weak transcription	Muscle Satellite Cultured Cells	--
5	chr6:114365800-114376400	Weak transcription	Brain Germinal Matrix	brain
6	chr6:114368800-114378600	Weak transcription	Psoas Muscle	Psoas
7	chr6:114370000-114376400	Weak transcription	Brain Cingulate Gyrus	brain
8	chr6:114370000-114387000	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
9	chr6:114370200-114382000	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
10	chr6:114370200-114389600	Weak transcription	Fetal Muscle Leg	muscle
11	chr6:114371000-114372600	Weak transcription	HSMM	muscle
12	chr6:114371200-114379000	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
13	chr6:114371400-114373200	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
14	chr6:114371400-114388200	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
15	chr6:114371600-114378600	Weak transcription	HepG2	liver
16	chr6:114372000-114372800	Weak transcription	HSMMtube	muscle
17	chr6:114372000-114373200	Weak transcription	Rectal Mucosa Donor 31	rectum

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