Variant report

Variant	rs62399063
Chromosome Location	chr6:31036878-31036879
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

TF binding
region (count:0)
CpG islands
(count:0)
Chromatin interactive
region (count:13)
LncRNA
region (count:0)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

No data

(count:13 , 50 per page) page: 1

No.	Distal block	Cell Line	Cell type
1	chr6:30882829..30883945-chr6:31036385..31037390,5	MCF-7	breast:
2	chr6:30710754..30713406-chr6:31035181..31039052,3	MCF-7	breast:
3	chr6:30581752..30584952-chr6:31036204..31040339,4	K562	blood:
4	chr6:30795970..30796922-chr6:31036758..31037281,2	K562	blood:
5	chr6:30881653..30882509-chr6:31036542..31037231,3	MCF-7	breast:
6	chr6:30581752..30584952-chr6:31036534..31040339,3	K562	blood:
7	chr6:30883455..30884220-chr6:31036364..31037359,3	K562	blood:
8	chr6:30852224..30854652-chr6:31035119..31038739,4	MCF-7	breast:
9	chr6:30882000..30883400-chr6:31036317..31037327,3	K562	blood:
10	chr6:30789776..30790473-chr6:31036346..31037323,4	K562	blood:
11	chr6:30796728..30798385-chr6:31036794..31038711,2	MCF-7	breast:
12	chr6:30880976..30884128-chr6:31034595..31037027,3	MCF-7	breast:
13	chr6:30906546..30909468-chr6:31036144..31038096,2	K562	blood:

No data

Variant related genes	Relation type
ENSG00000137411	Chromatin interaction
ENSG00000204580	Chromatin interaction
ENSG00000222894	Chromatin interaction
ENSG00000137331	Chromatin interaction
ENSG00000168631	Chromatin interaction

Extended variants
information (count: 23 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:6)

rs_ID	r²[population]
rs62399060	0.92[AFR][1000 genomes]
rs62399061	0.92[AFR][1000 genomes]
rs62399064	0.92[AFR][1000 genomes]
rs62399065	0.92[AFR][1000 genomes]
rs62399066	0.92[AFR][1000 genomes]
rs62401700	0.85[AFR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:17 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	esv3519970	chr6:30382942-31378788	Genic enhancers Weak transcription Flanking Active TSS Active TSS Flanking Bivalent TSS/Enh Enhancers Transcr. at gene 5' and 3' Strong transcription Bivalent Enhancer Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	1030 gene(s)	inside rSNPs	diseases
2	esv3519971	chr6:30382942-31378788	Bivalent Enhancer Flanking Active TSS Active TSS Weak transcription Enhancers Transcr. at gene 5' and 3' Strong transcription Genic enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	1030 gene(s)	inside rSNPs	diseases
3	nsv601481	chr6:30422632-31284253	Weak transcription Genic enhancers Transcr. at gene 5' and 3' Flanking Active TSS Strong transcription Enhancers Active TSS Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	1012 gene(s)	inside rSNPs	diseases
4	nsv1015372	chr6:30704734-31582152	Active TSS Flanking Active TSS Enhancers Weak transcription Genic enhancers Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Strong transcription ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	334 gene(s)	inside rSNPs	diseases
5	nsv538173	chr6:30704734-31582152	Flanking Active TSS Enhancers Weak transcription Active TSS Bivalent Enhancer Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS Strong transcription Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	334 gene(s)	inside rSNPs	diseases
6	nsv1029442	chr6:31006647-31449207	Flanking Active TSS Bivalent Enhancer Weak transcription Enhancers Active TSS Bivalent/Poised TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Genic enhancers Strong transcription ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA	82 gene(s)	inside rSNPs	diseases
7	nsv884130	chr6:31014305-31038756	Enhancers Flanking Active TSS Weak transcription Active TSS Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases
8	nsv884131	chr6:31014305-31040725	Enhancers Weak transcription Flanking Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Active TSS Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases
9	nsv884132	chr6:31014305-31057183	Enhancers Flanking Active TSS Weak transcription Active TSS Bivalent Enhancer ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	16 gene(s)	inside rSNPs	diseases
10	nsv427750	chr6:31028290-31234581	Flanking Active TSS Weak transcription Active TSS Enhancers Strong transcription Bivalent/Poised TSS Genic enhancers Bivalent Enhancer ZNF genes & repeats Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	47 gene(s)	inside rSNPs	diseases
11	nsv428140	chr6:31028290-31462106	Flanking Bivalent TSS/Enh Flanking Active TSS Enhancers Weak transcription Bivalent Enhancer Active TSS Transcr. at gene 5' and 3' Strong transcription Genic enhancers Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA	89 gene(s)	inside rSNPs	diseases
12	esv2758042	chr6:31028290-31497106	Weak transcription Active TSS Bivalent/Poised TSS Enhancers Genic enhancers Flanking Bivalent TSS/Enh Flanking Active TSS Strong transcription Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA	101 gene(s)	inside rSNPs	diseases
13	esv2759414	chr6:31028290-31542308	Flanking Active TSS Active TSS Bivalent/Poised TSS Weak transcription Enhancers Strong transcription Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Genic enhancers Bivalent Enhancer ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA	151 gene(s)	inside rSNPs	diseases
14	nsv884134	chr6:31028345-31048263	Enhancers Weak transcription Active TSS Flanking Active TSS Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region	11 gene(s)	inside rSNPs	diseases
15	nsv884135	chr6:31034264-31044522	Weak transcription Enhancers Flanking Active TSS Bivalent Enhancer Active TSS	Chromatin interactive region	5 gene(s)	inside rSNPs	diseases
16	esv3418321	chr6:31034773-31037171	Enhancers Weak transcription Active TSS Flanking Active TSS	Chromatin interactive region	5 gene(s)	inside rSNPs	diseases
17	nsv884136	chr6:31036783-31044522	Weak transcription Enhancers Flanking Active TSS Bivalent Enhancer Active TSS	Chromatin interactive region	5 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:38 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:31022200-31050800	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
2	chr6:31026200-31038000	Weak transcription	iPS-15b Cell Line	embryonic stem cell
3	chr6:31033600-31038200	Weak transcription	Skeletal Muscle Male	skeletal muscle
4	chr6:31033800-31040200	Weak transcription	Fetal Intestine Small	intestine
5	chr6:31034200-31040000	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
6	chr6:31034400-31040200	Weak transcription	HSMMtube	muscle
7	chr6:31034800-31037000	Enhancers	Fetal Brain Male	brain
8	chr6:31035000-31040000	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
9	chr6:31036000-31038400	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
10	chr6:31036000-31040000	Weak transcription	HSMM	muscle
11	chr6:31036000-31041000	Enhancers	Cortex derived primary cultured neurospheres	brain
12	chr6:31036200-31037000	Flanking Active TSS	Brain Substantia Nigra	brain
13	chr6:31036200-31037000	Enhancers	Fetal Kidney	kidney
14	chr6:31036200-31037000	Enhancers	Fetal Stomach	stomach
15	chr6:31036200-31037200	Enhancers	Brain Dorsolateral Prefrontal Cortex	brain
16	chr6:31036200-31038600	Enhancers	Brain Angular Gyrus	brain
17	chr6:31036200-31039000	Enhancers	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
18	chr6:31036400-31037000	Enhancers	NHDF-Ad	bronchial
19	chr6:31036400-31037200	Enhancers	H1 Cell Line	embryonic stem cell
20	chr6:31036400-31038200	Weak transcription	HUES64 Cell Line	embryonic stem cell
21	chr6:31036400-31038200	Weak transcription	HMEC	breast
22	chr6:31036400-31038400	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
23	chr6:31036600-31037200	Enhancers	Brain Inferior Temporal Lobe	brain
24	chr6:31036600-31038200	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
25	chr6:31036600-31038400	Weak transcription	Breast Myoepithelial Primary Cells	Breast
26	chr6:31036600-31038400	Weak transcription	NH-A	brain
27	chr6:31036600-31038400	Weak transcription	NHLF	lung
28	chr6:31036800-31037000	Enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
29	chr6:31036800-31037000	Enhancers	iPS DF 6.9 Cell Line	embryonic stem cell
30	chr6:31036800-31037000	Enhancers	Foreskin Melanocyte Primary Cells skin01	Skin
31	chr6:31036800-31037000	Enhancers	Fetal Heart	heart
32	chr6:31036800-31037000	Enhancers	Right Atrium	heart
33	chr6:31036800-31037200	Enhancers	Brain Cingulate Gyrus	brain
34	chr6:31036800-31037800	Enhancers	Brain Anterior Caudate	brain
35	chr6:31036800-31038000	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
36	chr6:31036800-31038200	Weak transcription	iPS-18 Cell Line	embryonic stem cell
37	chr6:31036800-31039000	Enhancers	H9 Derived Neuron Cultured Cells	ES cell derived
38	chr6:31036800-31039000	Enhancers	Brain Hippocampus Middle	brain

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