Variant report

Variant	rs6910180
Chromosome Location	chr6:37759821-37759822
allele	A/G
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:12)
LncRNA
region (count:0)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

No data

(count:12 , 50 per page) page: 1

No.	Distal block	Cell Line	Cell type
1	chr6:37759760..37760279-chr7:5565667..5566244,2	HCT-116	colon:
2	chr5:50258702..50259774-chr6:37758614..37759901,5	K562	blood:
3	chr6:37759642..37762006-chr6:37820086..37822847,3	MCF-7	breast:
4	chr6:37758959..37759891-chr6:37827609..37828644,7	MCF-7	breast:
5	chr6:37758989..37760196-chr6:37827512..37828655,4	MCF-7	breast:
6	chr6:37759272..37760030-chr6:37786003..37786959,2	K562	blood:
7	chr6:37758926..37760720-chr6:37767100..37768812,2	K562	blood:
8	chr6:37758354..37761850-chr6:37786421..37788597,3	K562	blood:
9	chr6:37759261..37759896-chr6:37827736..37828259,2	K562	blood:
10	chr6:37757989..37761183-chr6:37784912..37786796,3	MCF-7	breast:
11	chr6:37758900..37760044-chr6:37980106..37981056,5	MCF-7	breast:
12	chr6:37756505..37762867-chr6:37772774..37778127,6	MCF-7	breast:

No data

Variant related genes	Relation type
ENSG00000156639	Chromatin interaction
ENSG00000225945	Chromatin interaction

Extended variants
information (count: 7 )
Associated
traits (count: 4 )

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

rs_ID	r²[population]
rs6910715	0.85[JPT][hapmap]
rs6911481	0.85[JPT][hapmap]
rs6936260	0.85[JPT][hapmap]
rs7750445	0.85[JPT][hapmap]
rs7762052	0.85[JPT][hapmap]

Variant overlapped rSNPs/rCNVs (count:2 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1028825	chr6:37495154-38278320	Enhancers Active TSS Weak transcription Bivalent/Poised TSS Flanking Active TSS Bivalent Enhancer Strong transcription Flanking Bivalent TSS/Enh ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	19 gene(s)	inside rSNPs	diseases
2	nsv1024016	chr6:37567651-37981590	Weak transcription Enhancers Active TSS Strong transcription Bivalent Enhancer Flanking Bivalent TSS/Enh ZNF genes & repeats Genic enhancers Flanking Active TSS Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	14 gene(s)	inside rSNPs	diseases

mRNA abundance (count:4)

SNP	Gene	Cis/trans	Tissue	Source
rs6910180	TCP11	cis	cerebellum	SCAN
rs6910180	KCNK17	cis	parietal	SCAN
rs6910180	RPL10A	cis	parietal	SCAN
rs6910180	NUDT3	cis	cerebellum	SCAN

Chromatin state (count:45 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:37758200-37760000	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
2	chr6:37758600-37760000	Enhancers	ES-I3 Cell Line	embryonic stem cell
3	chr6:37758600-37760000	Enhancers	H1 Derived Mesenchymal Stem Cells	ES cell derived
4	chr6:37758600-37760000	Enhancers	NHLF	lung
5	chr6:37758600-37760000	Enhancers	Osteobl	bone
6	chr6:37758600-37760600	Enhancers	Brain Inferior Temporal Lobe	brain
7	chr6:37758600-37761400	Enhancers	NHDF-Ad	bronchial
8	chr6:37758600-37762600	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
9	chr6:37758800-37760000	Enhancers	Adipose Nuclei	Adipose
10	chr6:37758800-37760000	Enhancers	Placenta Amnion	Placenta Amnion
11	chr6:37758800-37760000	Enhancers	K562	blood
12	chr6:37758800-37761600	Enhancers	Placenta	Placenta
13	chr6:37759000-37760600	Enhancers	Fetal Thymus	thymus
14	chr6:37759200-37760400	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
15	chr6:37759200-37762400	Weak transcription	HSMMtube	muscle
16	chr6:37759200-37768400	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
17	chr6:37759600-37760600	Weak transcription	Left Ventricle	heart
18	chr6:37759600-37760800	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
19	chr6:37759600-37762400	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
20	chr6:37759600-37766000	Weak transcription	Lung	lung
21	chr6:37759600-37767200	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
22	chr6:37759600-37767200	Weak transcription	Right Atrium	heart
23	chr6:37759800-37760200	Weak transcription	Stomach Smooth Muscle	stomach
24	chr6:37759800-37760600	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
25	chr6:37759800-37760800	Weak transcription	HUES6 Cell Line	embryonic stem cell
26	chr6:37759800-37760800	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
27	chr6:37759800-37760800	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
28	chr6:37759800-37760800	Weak transcription	Fetal Muscle Leg	muscle
29	chr6:37759800-37760800	Weak transcription	A549	lung
30	chr6:37759800-37761400	Weak transcription	Skeletal Muscle Female	skeletal muscle
31	chr6:37759800-37761400	Enhancers	HepG2	liver
32	chr6:37759800-37762400	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
33	chr6:37759800-37762400	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
34	chr6:37759800-37762400	Weak transcription	Muscle Satellite Cultured Cells	--
35	chr6:37759800-37762400	Weak transcription	Psoas Muscle	Psoas
36	chr6:37759800-37762400	Weak transcription	Skeletal Muscle Male	skeletal muscle
37	chr6:37759800-37762400	Weak transcription	HSMM	muscle
38	chr6:37759800-37762400	Weak transcription	NHEK	skin
39	chr6:37759800-37762600	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
40	chr6:37759800-37762600	Weak transcription	HMEC	breast
41	chr6:37759800-37762600	Weak transcription	NH-A	brain
42	chr6:37759800-37763800	Weak transcription	Liver	Liver
43	chr6:37759800-37764000	Weak transcription	Pancreas	Pancrea
44	chr6:37759800-37764200	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
45	chr6:37759800-37768600	Weak transcription	Cortex derived primary cultured neurospheres	brain

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