Variant report

Variant	rs6455972
Chromosome Location	chr6:165341169-165341170
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	chr6:164767711..164769131-chr6:165340232..165341669,7	MCF-7	breast:
2	chr6:164768200..164769032-chr6:165340931..165341635,2	MCF-7	breast:

Extended variants
information (count: 9 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:5)

rs_ID	r²[population]
rs12189587	0.81[AMR][1000 genomes]
rs13197155	0.86[AMR][1000 genomes]
rs6921473	0.92[AMR][1000 genomes];0.88[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs752487	0.86[AMR][1000 genomes]
rs9365814	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:4 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv605232	chr6:164994771-165401154	Enhancers Weak transcription ZNF genes & repeats Active TSS Flanking Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
2	nsv521153	chr6:165279393-165343557	Enhancers Weak transcription ZNF genes & repeats Active TSS Flanking Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh	Chromatin interactive region lncRNA	n/a	inside rSNPs	diseases
3	nsv886925	chr6:165319631-165705488	Enhancers Flanking Active TSS Weak transcription Genic enhancers Active TSS Strong transcription ZNF genes & repeats Bivalent Enhancer Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	2 gene(s)	inside rSNPs	diseases
4	esv3410490	chr6:165337362-165341860	Enhancers Active TSS Flanking Active TSS Weak transcription ZNF genes & repeats Bivalent Enhancer	Chromatin interactive region lncRNA	n/a	inside rSNPs	n/a

No data

Chromatin state (count:35 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:165333200-165346200	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
2	chr6:165338200-165341200	Enhancers	Cortex derived primary cultured neurospheres	brain
3	chr6:165338200-165341400	Enhancers	Fetal Heart	heart
4	chr6:165338600-165341200	Weak transcription	Duodenum Smooth Muscle	Duodenum
5	chr6:165338600-165341200	Weak transcription	Psoas Muscle	Psoas
6	chr6:165338800-165341200	Weak transcription	Fetal Muscle Trunk	muscle
7	chr6:165339000-165341200	Enhancers	H9 Derived Neuron Cultured Cells	ES cell derived
8	chr6:165339600-165342800	Enhancers	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
9	chr6:165339800-165341200	Weak transcription	Brain Hippocampus Middle	brain
10	chr6:165339800-165342000	Weak transcription	Gastric	stomach
11	chr6:165340200-165341200	Weak transcription	Brain Germinal Matrix	brain
12	chr6:165340200-165341200	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
13	chr6:165340200-165341200	Weak transcription	Skeletal Muscle Female	skeletal muscle
14	chr6:165340200-165341600	Enhancers	iPS-18 Cell Line	embryonic stem cell
15	chr6:165340400-165341200	Weak transcription	Brain Angular Gyrus	brain
16	chr6:165340400-165341200	Weak transcription	Brain Inferior Temporal Lobe	brain
17	chr6:165340800-165341200	Enhancers	ES-I3 Cell Line	embryonic stem cell
18	chr6:165340800-165341200	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
19	chr6:165340800-165341200	Enhancers	Fetal Muscle Leg	muscle
20	chr6:165340800-165341200	Enhancers	HSMM	muscle
21	chr6:165340800-165341200	Enhancers	HSMMtube	muscle
22	chr6:165340800-165341400	Enhancers	Breast Myoepithelial Primary Cells	Breast
23	chr6:165340800-165341600	Enhancers	iPS-20b Cell Line	embryonic stem cell
24	chr6:165340800-165341600	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
25	chr6:165340800-165344000	Active TSS	Brain Anterior Caudate	brain
26	chr6:165341000-165341200	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
27	chr6:165341000-165341200	Enhancers	Muscle Satellite Cultured Cells	--
28	chr6:165341000-165341200	Flanking Active TSS	Brain Substantia Nigra	brain
29	chr6:165341000-165341200	Flanking Active TSS	Fetal Brain Male	brain
30	chr6:165341000-165341200	Weak transcription	Fetal Brain Female	brain
31	chr6:165341000-165341200	Enhancers	Fetal Kidney	kidney
32	chr6:165341000-165341200	Enhancers	Skeletal Muscle Male	skeletal muscle
33	chr6:165341000-165341600	Enhancers	HUES48 Cell Line	embryonic stem cell
34	chr6:165341000-165342000	Active TSS	Brain Cingulate Gyrus	brain
35	chr6:165341000-165342200	Active TSS	Ganglion Eminence derived primary cultured neurospheres	brain

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