Variant report

Variant	rs10277828
Chromosome Location	chr7:102629282-102629283
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr7:102627919..102629951-chr7:102630613..102632281,3	K562	blood:
2	chr7:102628465..102631626-chr7:102631792..102634551,3	MCF-7	breast:
3	chr7:102573565..102575111-chr7:102627251..102629778,2	K562	blood:

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-LRRC17-1	chr7:102628822-102629303	ENSG00000230257

Variant related genes	Relation type
ENSG00000128606	Chromatin interaction
ENSG00000161040	Chromatin interaction

Extended variants
information (count: 33 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:28)

rs_ID	r²[population]
rs10156027	0.89[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs10225811	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs10232029	0.89[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs10239891	1.00[AMR][1000 genomes]
rs10241815	1.00[AFR][1000 genomes]
rs10241827	1.00[AFR][1000 genomes]
rs10241926	1.00[AFR][1000 genomes]
rs10242506	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs10248082	1.00[AMR][1000 genomes]
rs10253514	0.80[AFR][1000 genomes]
rs10255596	0.89[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs10260888	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs10261565	1.00[AMR][1000 genomes]
rs10281578	1.00[AMR][1000 genomes]
rs10282582	0.84[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs28444303	1.00[AMR][1000 genomes]
rs28452903	1.00[AFR][1000 genomes]
rs28482805	0.89[AFR][1000 genomes]
rs28722504	1.00[AMR][1000 genomes]
rs28894762	1.00[AFR][1000 genomes]
rs58593428	1.00[AFR][1000 genomes]
rs58612464	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs6944594	0.85[AFR][1000 genomes]
rs6949710	0.89[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs6951111	1.00[AFR][1000 genomes]
rs6953456	1.00[AFR][1000 genomes]
rs6970026	1.00[AMR][1000 genomes]
rs7792008	1.00[AFR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:5 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1016563	chr7:101912320-102695860	Weak transcription Genic enhancers Flanking Active TSS Enhancers Strong transcription Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	76 gene(s)	inside rSNPs	diseases
2	nsv1028438	chr7:101912320-102704135	Strong transcription Weak transcription Enhancers Active TSS Flanking Active TSS Genic enhancers ZNF genes & repeats Bivalent Enhancer Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	76 gene(s)	inside rSNPs	diseases
3	nsv868996	chr7:102332827-102991361	ZNF genes & repeats Strong transcription Weak transcription Enhancers Flanking Active TSS Active TSS Bivalent/Poised TSS Genic enhancers Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	46 gene(s)	inside rSNPs	diseases
4	esv2752138	chr7:102358320-102787135	Enhancers Weak transcription Strong transcription Active TSS Flanking 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	33 gene(s)	inside rSNPs	diseases
5	nsv5881	chr7:102610488-102655699	Enhancers Weak transcription Flanking Active TSS Active TSS ZNF genes & repeats Bivalent Enhancer Genic enhancers Strong transcription Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:31 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr7:102613200-102631200	Weak transcription	Primary hematopoietic stem cells	blood
2	chr7:102618400-102630000	Weak transcription	Right Atrium	heart
3	chr7:102623800-102636600	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
4	chr7:102625800-102629800	Weak transcription	Gastric	stomach
5	chr7:102625800-102632600	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
6	chr7:102626000-102629400	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
7	chr7:102626000-102630400	Weak transcription	HUVEC	blood vessel
8	chr7:102626200-102630600	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
9	chr7:102626200-102631200	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
10	chr7:102626400-102629800	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
11	chr7:102626400-102631000	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
12	chr7:102626400-102631000	Weak transcription	NHDF-Ad	bronchial
13	chr7:102626400-102631000	Weak transcription	NHEK	skin
14	chr7:102626400-102631200	Weak transcription	NH-A	brain
15	chr7:102626400-102631600	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
16	chr7:102626600-102629400	Weak transcription	Muscle Satellite Cultured Cells	--
17	chr7:102626600-102630400	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
18	chr7:102626600-102630400	Weak transcription	Osteobl	bone
19	chr7:102626600-102630600	Weak transcription	HMEC	breast
20	chr7:102627000-102629400	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
21	chr7:102627000-102629400	Weak transcription	Aorta	Aorta
22	chr7:102627800-102631800	Genic enhancers	K562	blood
23	chr7:102628200-102631600	Enhancers	Ovary	ovary
24	chr7:102628400-102631200	Enhancers	Hela-S3	cervix
25	chr7:102628800-102629800	Enhancers	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
26	chr7:102628800-102630000	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Female	--
27	chr7:102629000-102629600	Enhancers	Monocytes-CD14+_RO01746	blood
28	chr7:102629000-102631200	Enhancers	Fetal Adrenal Gland	Adrenal Gland
29	chr7:102629000-102634200	Enhancers	Primary hematopoietic stem cells short term culture	blood
30	chr7:102629000-102634400	Enhancers	Primary monocytes fromperipheralblood	blood
31	chr7:102629200-102630200	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Male	--

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