Variant report

Variant	rs7781006
Chromosome Location	chr7:6150576-6150577
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr7:6144020..6147563-chr7:6150112..6152871,4	MCF-7	breast:
2	chr7:6143739..6147263-chr7:6147410..6152468,7	K562	blood:
3	chr7:6143803..6145949-chr7:6148611..6151590,2	MCF-7	breast:
4	chr7:6142931..6146749-chr7:6148381..6152637,7	K562	blood:
5	chr7:6149402..6151477-chr7:6152407..6154714,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000106346	Chromatin interaction

Extended variants
information (count: 31 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:18)

rs_ID	r²[population]
rs11971500	0.86[ASW][hapmap];0.89[YRI][hapmap];1.00[AMR][1000 genomes]
rs11972027	1.00[AMR][1000 genomes]
rs11974287	1.00[AMR][1000 genomes]
rs11980833	1.00[AMR][1000 genomes]
rs13309885	1.00[AMR][1000 genomes]
rs17136039	1.00[AMR][1000 genomes]
rs34260367	1.00[AMR][1000 genomes]
rs60874263	1.00[AMR][1000 genomes]
rs61446642	1.00[AMR][1000 genomes]
rs6463536	0.84[ASW][hapmap];1.00[YRI][hapmap]
rs6951753	0.85[YRI][hapmap];1.00[AMR][1000 genomes]
rs6957141	1.00[ASW][hapmap];0.92[LWK][hapmap];1.00[MKK][hapmap];1.00[YRI][hapmap];0.98[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs6957720	1.00[AMR][1000 genomes]
rs6957737	1.00[AMR][1000 genomes]
rs6970518	1.00[AMR][1000 genomes]
rs7776722	1.00[AMR][1000 genomes]
rs7786901	1.00[AMR][1000 genomes]
rs7798762	1.00[AMR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:13 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv533108	chr7:5488018-6316581	Strong transcription ZNF genes & repeats Transcr. at gene 5' and 3' Flanking Active TSS Weak transcription Enhancers Genic enhancers Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	390 gene(s)	inside rSNPs	diseases
2	nsv1033556	chr7:5565080-6186815	Weak transcription Active TSS Flanking Active TSS Bivalent Enhancer Strong transcription Enhancers Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh ZNF genes & repeats Genic enhancers Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	357 gene(s)	inside rSNPs	diseases
3	nsv538710	chr7:5565080-6186815	Bivalent Enhancer Flanking Active TSS Enhancers Active TSS Weak transcription Strong transcription Genic enhancers Flanking Bivalent TSS/Enh ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	357 gene(s)	inside rSNPs	diseases
4	nsv1021989	chr7:5629728-6186815	Strong transcription Flanking Active TSS Weak transcription Enhancers Genic enhancers Active TSS ZNF genes & repeats Bivalent Enhancer Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	126 gene(s)	inside rSNPs	diseases
5	nsv948912	chr7:5803903-6623553	Active TSS Flanking Active TSS Weak transcription Strong transcription Enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS Genic enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	123 gene(s)	inside rSNPs	diseases
6	nsv1034060	chr7:5814823-6745710	Bivalent Enhancer Active TSS Weak transcription Flanking Active TSS Enhancers Genic enhancers Strong transcription ZNF genes & repeats Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	138 gene(s)	inside rSNPs	diseases
7	nsv538711	chr7:5814823-6745710	Weak transcription ZNF genes & repeats Flanking Active TSS Enhancers Active TSS Genic enhancers Strong transcription Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	138 gene(s)	inside rSNPs	diseases
8	nsv1028242	chr7:5819084-6645024	Flanking Active TSS Weak transcription Enhancers Bivalent/Poised TSS Strong transcription Bivalent Enhancer Active TSS Genic enhancers ZNF genes & repeats Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	127 gene(s)	inside rSNPs	diseases
9	nsv538712	chr7:5819084-6645024	Weak transcription Active TSS Genic enhancers Enhancers Bivalent Enhancer Flanking Active TSS Strong transcription Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	127 gene(s)	inside rSNPs	diseases
10	nsv1034916	chr7:5934780-6158970	Active TSS Genic enhancers Strong transcription Weak transcription Enhancers Transcr. at gene 5' and 3' Flanking Active TSS ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	78 gene(s)	inside rSNPs	diseases
11	nsv949531	chr7:5949371-6753694	Strong transcription Bivalent Enhancer Bivalent/Poised TSS Enhancers Weak transcription Genic enhancers Flanking Active TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh ZNF genes & repeats Active TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	129 gene(s)	inside rSNPs	diseases
12	nsv1021037	chr7:6070792-6426966	Strong transcription Enhancers Flanking Active TSS Active TSS Weak transcription Transcr. at gene 5' and 3' Genic enhancers ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	64 gene(s)	inside rSNPs	diseases
13	nsv538713	chr7:6070792-6426966	Weak transcription Flanking Active TSS Enhancers Genic enhancers Active TSS Strong transcription Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	64 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs7781006	C5orf55	trans	lymphoblastoid	seeQTL

Chromatin state (count:125 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr7:6145600-6152200	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
2	chr7:6145600-6155000	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
3	chr7:6145600-6186000	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
4	chr7:6145600-6186400	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
5	chr7:6145800-6152600	Weak transcription	H9 Cell Line	embryonic stem cell
6	chr7:6145800-6152800	Weak transcription	Small Intestine	intestine
7	chr7:6146000-6152000	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
8	chr7:6146200-6150800	Weak transcription	HUES48 Cell Line	embryonic stem cell
9	chr7:6146200-6152000	Weak transcription	ES-I3 Cell Line	embryonic stem cell
10	chr7:6146200-6152600	Weak transcription	H1 Cell Line	embryonic stem cell
11	chr7:6146200-6152800	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
12	chr7:6146200-6155000	Weak transcription	iPS-15b Cell Line	embryonic stem cell
13	chr7:6146400-6150600	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
14	chr7:6146400-6150600	Weak transcription	HUES64 Cell Line	embryonic stem cell
15	chr7:6146400-6150800	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
16	chr7:6146400-6150800	Weak transcription	Brain Inferior Temporal Lobe	brain
17	chr7:6146400-6150800	Weak transcription	Lung	lung
18	chr7:6146400-6150800	Weak transcription	Ovary	ovary
19	chr7:6146400-6152800	Weak transcription	Aorta	Aorta
20	chr7:6146400-6157600	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
21	chr7:6146400-6158800	Weak transcription	Esophagus	oesophagus
22	chr7:6146400-6159400	Weak transcription	Gastric	stomach
23	chr7:6146400-6159800	Weak transcription	Pancreas	Pancrea
24	chr7:6146600-6150600	Weak transcription	HUES6 Cell Line	embryonic stem cell
25	chr7:6146600-6150600	Weak transcription	Primary monocytes fromperipheralblood	blood
26	chr7:6146600-6150600	Weak transcription	Primary B cells from cord blood	blood
27	chr7:6146600-6150600	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
28	chr7:6146600-6150600	Weak transcription	Fetal Muscle Trunk	muscle
29	chr7:6146600-6150800	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
30	chr7:6146600-6150800	Weak transcription	iPS-18 Cell Line	embryonic stem cell
31	chr7:6146600-6150800	Weak transcription	Primary neutrophils fromperipheralblood	blood
32	chr7:6146600-6150800	Weak transcription	Primary hematopoietic stem cells short term culture	blood
33	chr7:6146600-6150800	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
34	chr7:6146600-6150800	Weak transcription	Fetal Muscle Leg	muscle
35	chr7:6146600-6150800	Weak transcription	Fetal Thymus	thymus
36	chr7:6146600-6150800	Weak transcription	Left Ventricle	heart
37	chr7:6146600-6150800	Weak transcription	Spleen	Spleen
38	chr7:6146600-6151000	Weak transcription	Placenta	Placenta
39	chr7:6146600-6152800	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
40	chr7:6146600-6152800	Weak transcription	Right Ventricle	heart
41	chr7:6146600-6154800	Weak transcription	Psoas Muscle	Psoas
42	chr7:6146600-6155000	Weak transcription	Colonic Mucosa	Colon
43	chr7:6146600-6155000	Weak transcription	Colon Smooth Muscle	Colon
44	chr7:6146600-6155000	Weak transcription	Fetal Brain Male	brain
45	chr7:6146800-6150600	Weak transcription	iPS-20b Cell Line	embryonic stem cell
46	chr7:6146800-6150600	Weak transcription	Primary B cells from peripheral blood	blood
47	chr7:6146800-6150600	Weak transcription	Primary T cells from cord blood	blood
48	chr7:6146800-6150600	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
49	chr7:6146800-6150600	Weak transcription	Osteobl	bone
50	chr7:6146800-6150800	Weak transcription	Primary T helper cells PMA-I stimulated	--

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