Variant report

Variant	rs6455974
Chromosome Location	chr6:165341329-165341330
allele	C/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: 18 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:14)

rs_ID	r²[population]
rs1227992	1.00[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs1227993	1.00[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs1322188	0.86[AFR][1000 genomes];0.91[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs58801628	0.90[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs61611447	0.81[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs6455971	0.91[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6455973	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6901342	0.91[AMR][1000 genomes];0.93[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs6934301	0.83[AMR][1000 genomes];0.97[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs7748837	0.86[AFR][1000 genomes];0.81[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs7749037	0.81[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs911723	0.83[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9365813	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9365818	0.92[EUR][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:38 , 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	chr6:165338200-165341400	Enhancers	Fetal Heart	heart
3	chr6:165339600-165342800	Enhancers	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
4	chr6:165339800-165342000	Weak transcription	Gastric	stomach
5	chr6:165340200-165341600	Enhancers	iPS-18 Cell Line	embryonic stem cell
6	chr6:165340800-165341400	Enhancers	Breast Myoepithelial Primary Cells	Breast
7	chr6:165340800-165341600	Enhancers	iPS-20b Cell Line	embryonic stem cell
8	chr6:165340800-165341600	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
9	chr6:165340800-165344000	Active TSS	Brain Anterior Caudate	brain
10	chr6:165341000-165341600	Enhancers	HUES48 Cell Line	embryonic stem cell
11	chr6:165341000-165342000	Active TSS	Brain Cingulate Gyrus	brain
12	chr6:165341000-165342200	Active TSS	Ganglion Eminence derived primary cultured neurospheres	brain
13	chr6:165341200-165341400	Active TSS	Brain Substantia Nigra	brain
14	chr6:165341200-165341400	Flanking Active TSS	Fetal Muscle Leg	muscle
15	chr6:165341200-165341600	Flanking Active TSS	H9 Derived Neuron Cultured Cells	ES cell derived
16	chr6:165341200-165341600	Flanking Active TSS	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
17	chr6:165341200-165341600	Flanking Active TSS	Cortex derived primary cultured neurospheres	brain
18	chr6:165341200-165341600	Enhancers	Duodenum Smooth Muscle	Duodenum
19	chr6:165341200-165341600	Flanking Active TSS	Fetal Kidney	kidney
20	chr6:165341200-165341600	Flanking Active TSS	Skeletal Muscle Male	skeletal muscle
21	chr6:165341200-165341800	Active TSS	Fetal Muscle Trunk	muscle
22	chr6:165341200-165341800	Flanking Active TSS	HSMMtube	muscle
23	chr6:165341200-165342000	Active TSS	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
24	chr6:165341200-165342000	Active TSS	Fetal Brain Male	brain
25	chr6:165341200-165342000	Active TSS	Psoas Muscle	Psoas
26	chr6:165341200-165342000	Active TSS	Osteobl	bone
27	chr6:165341200-165342200	Flanking Active TSS	Muscle Satellite Cultured Cells	--
28	chr6:165341200-165342200	Active TSS	Foreskin Melanocyte Primary Cells skin01	Skin
29	chr6:165341200-165342200	Flanking Active TSS	Foreskin Melanocyte Primary Cells skin03	Skin
30	chr6:165341200-165342200	Flanking Active TSS	Skeletal Muscle Female	skeletal muscle
31	chr6:165341200-165342200	Flanking Active TSS	HSMM	muscle
32	chr6:165341200-165342200	Active TSS	NH-A	brain
33	chr6:165341200-165342600	Active TSS	Brain Germinal Matrix	brain
34	chr6:165341200-165342600	Active TSS	Brain Inferior Temporal Lobe	brain
35	chr6:165341200-165342800	Active TSS	Brain Angular Gyrus	brain
36	chr6:165341200-165342800	Active TSS	Brain Hippocampus Middle	brain
37	chr6:165341200-165343000	Active TSS	Brain Dorsolateral Prefrontal Cortex	brain
38	chr6:165341200-165343200	Active TSS	Fetal Brain Female	brain

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