Variant report

Variant	rs61731699
Chromosome Location	chr6:109319770-109319771
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	chr6:109319317..109321396-chr6:109329836..109331681,2	MCF-7	breast:
2	chr6:109317601..109319870-chr6:109329509..109331082,2	MCF-7	breast:

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-ARMC2-1	chr6:109319685-109320328	ENSG00000271730.1

Variant related genes	Relation type
ENSG00000080546	Chromatin interaction

Extended variants
information (count: 7 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:4)

rs_ID	r²[population]
rs17070108	0.83[AFR][1000 genomes]
rs17070151	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs17070184	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs7760310	1.00[AFR][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	nsv830768	chr6:109177268-109357600	Weak transcription Flanking Active TSS Strong transcription Enhancers Active TSS ZNF genes & repeats Genic enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	13 gene(s)	inside rSNPs	diseases
2	nsv886532	chr6:109281620-109383659	Enhancers Weak transcription Genic enhancers Strong transcription 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 target site	10 gene(s)	inside rSNPs	diseases
3	nsv1017230	chr6:109315749-109382424	Enhancers Weak transcription Active TSS Flanking Active TSS Genic enhancers Strong transcription Bivalent/Poised TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:123 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:109290400-109330000	Weak transcription	Gastric	stomach
2	chr6:109304600-109323400	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
3	chr6:109305000-109323600	Strong transcription	Primary Natural Killer cells fromperipheralblood	blood
4	chr6:109305600-109322800	Strong transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
5	chr6:109305600-109323400	Weak transcription	Small Intestine	intestine
6	chr6:109306600-109319800	Strong transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
7	chr6:109306600-109324000	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
8	chr6:109306800-109322800	Strong transcription	Breast Myoepithelial Primary Cells	Breast
9	chr6:109306800-109323200	Strong transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
10	chr6:109306800-109328200	Weak transcription	HUVEC	blood vessel
11	chr6:109307000-109323000	Strong transcription	H9 Derived Neuron Cultured Cells	ES cell derived
12	chr6:109307200-109320000	Strong transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
13	chr6:109307200-109321800	Strong transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
14	chr6:109307200-109322600	Strong transcription	Primary T helper cells fromperipheralblood	blood
15	chr6:109307200-109322800	Strong transcription	Primary T regulatory cells fromperipheralblood	blood
16	chr6:109307400-109322600	Strong transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
17	chr6:109307600-109322800	Strong transcription	HUES48 Cell Line	embryonic stem cell
18	chr6:109307600-109329800	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
19	chr6:109307800-109321800	Strong transcription	Foreskin Melanocyte Primary Cells skin03	Skin
20	chr6:109307800-109322000	Strong transcription	Fetal Thymus	thymus
21	chr6:109307800-109322800	Strong transcription	HMEC	breast
22	chr6:109307800-109323000	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
23	chr6:109307800-109323000	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
24	chr6:109308200-109320200	Weak transcription	Hela-S3	cervix
25	chr6:109308200-109323000	Strong transcription	HUES6 Cell Line	embryonic stem cell
26	chr6:109308200-109323400	Strong transcription	Primary T helper cells PMA-I stimulated	--
27	chr6:109308600-109323600	Strong transcription	Primary B cells from peripheral blood	blood
28	chr6:109310000-109321400	Weak transcription	Dnd41	blood
29	chr6:109310000-109322600	Weak transcription	Right Atrium	heart
30	chr6:109311200-109329200	Weak transcription	Thymus	Thymus
31	chr6:109311400-109329800	Weak transcription	Colonic Mucosa	Colon
32	chr6:109311600-109322000	Strong transcription	Rectal Mucosa Donor 29	rectum
33	chr6:109311600-109323200	Weak transcription	NHEK	skin
34	chr6:109311600-109329800	Weak transcription	H9 Cell Line	embryonic stem cell
35	chr6:109312000-109321800	Strong transcription	Liver	Liver
36	chr6:109312000-109329200	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
37	chr6:109312000-109329800	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
38	chr6:109312200-109322000	Strong transcription	Rectal Mucosa Donor 31	rectum
39	chr6:109312200-109322400	Weak transcription	Fetal Kidney	kidney
40	chr6:109312200-109329200	Weak transcription	NH-A	brain
41	chr6:109312600-109320800	Weak transcription	Brain Germinal Matrix	brain
42	chr6:109312600-109323000	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
43	chr6:109312600-109328200	Weak transcription	ES-I3 Cell Line	embryonic stem cell
44	chr6:109312800-109321000	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
45	chr6:109312800-109321600	Weak transcription	Right Ventricle	heart
46	chr6:109312800-109322800	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
47	chr6:109312800-109323400	Weak transcription	Aorta	Aorta
48	chr6:109312800-109330000	Weak transcription	Esophagus	oesophagus
49	chr6:109312800-109330000	Weak transcription	Lung	lung
50	chr6:109312800-109330000	Weak transcription	Spleen	Spleen

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