Variant report

Variant	rs61396151
Chromosome Location	chr6:86385682-86385683
allele	A/C
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:16)
LncRNA
region (count:1)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

No data

(count:16 , 50 per page) page: 1

No.	Distal block	Cell Line	Cell type
1	chr6:86383135..86386189-chr6:86457468..86460297,4	MCF-7	breast:
2	chr6:86338689..86357756-chr6:86378394..86390434,115	MCF-7	breast:
3	chr6:86360455..86373602-chr6:86382637..86391992,19	MCF-7	breast:
4	chr6:86383563..86385942-chr8:54754385..54756086,2	K562	blood:
5	chr6:86287818..86291892-chr6:86385672..86390313,6	MCF-7	breast:
6	chr6:86245511..86248155-chr6:86383432..86385693,2	K562	blood:
7	chr6:86323280..86334231-chr6:86380512..86390230,24	K562	blood:
8	chr6:86384594..86386978-chr6:86426748..86429729,2	K562	blood:
9	chr6:86385354..86387066-chr6:86420023..86422030,2	K562	blood:
10	chr6:86302271..86307129-chr6:86385631..86390073,11	MCF-7	breast:
11	chr6:86312962..86319312-chr6:86381507..86386179,8	K562	blood:
12	chr6:86300286..86310605-chr6:86384413..86390498,39	K562	blood:
13	chr6:86298349..86307534-chr6:86383938..86391964,31	K562	blood:
14	chr1:73798827..73801805-chr6:86383227..86385872,2	K562	blood:
15	chr6:86301325..86305014-chr6:86385299..86388840,4	MCF-7	breast:
16	chr6:86296828..86298833-chr6:86383928..86385738,2	K562	blood:

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

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-NT5E-3	chr6:86385141-86386388	NONHSAT113852

No data

Variant related genes	Relation type
ENSG00000271793	Chromatin interaction
ENSG00000047249	Chromatin interaction
ENSG00000135316	Chromatin interaction
ENSG00000236016	Chromatin interaction
ENSG00000220563	Chromatin interaction
ENSG00000135317	Chromatin interaction

Extended variants
information (count: 7 )
Associated
traits (count: 2 )

rSNPs within LD-proxies of this variant (count:2)

rs_ID	r²[population]
rs17440806	0.84[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs17440948	0.80[AFR][1000 genomes];0.84[AMR][1000 genomes];0.83[EUR][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	nsv1022445	chr6:85972678-86392968	Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats Strong transcription Transcr. at gene 5' and 3' Genic enhancers Bivalent/Poised TSS Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	136 gene(s)	inside rSNPs	diseases
2	nsv538349	chr6:85972678-86392968	Active TSS Enhancers Weak transcription Strong transcription Genic enhancers Flanking Active TSS ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	136 gene(s)	inside rSNPs	diseases
3	nsv886334	chr6:86214507-86394403	Weak transcription ZNF genes & repeats Flanking Active TSS Strong transcription Genic enhancers Enhancers Active TSS Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	124 gene(s)	inside rSNPs	diseases
4	nsv1028293	chr6:86353958-86778912	Flanking Active TSS Weak transcription Active TSS Strong transcription Enhancers Transcr. at gene 5' and 3' ZNF genes & repeats Genic enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	100 gene(s)	inside rSNPs	diseases
5	nsv538350	chr6:86353958-86778912	Enhancers Weak transcription Strong transcription Active TSS Flanking Active TSS ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	100 gene(s)	inside rSNPs	diseases

mRNA abundance (count:2)

SNP	Gene	Cis/trans	Tissue	Source
rs61396151	SNHG5	cis	Whole Blood	GTEx
rs61396151	SNHG5	cis	Muscle Skeletal	GTEx

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:86370400-86386800	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
2	chr6:86375800-86385800	Weak transcription	Left Ventricle	heart
3	chr6:86380400-86387000	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
4	chr6:86380600-86387200	Weak transcription	Gastric	stomach
5	chr6:86382000-86386400	Weak transcription	Placenta	Placenta
6	chr6:86382600-86385800	Weak transcription	Lung	lung
7	chr6:86383000-86386000	Enhancers	Primary monocytes fromperipheralblood	blood
8	chr6:86383000-86387000	Transcr. at gene 5' and 3'	GM12878-XiMat	blood
9	chr6:86383800-86385800	Enhancers	Small Intestine	intestine
10	chr6:86384200-86388200	Transcr. at gene 5' and 3'	iPS-20b Cell Line	embryonic stem cell
11	chr6:86384400-86385800	Flanking Active TSS	Fetal Brain Female	brain
12	chr6:86384400-86386200	Genic enhancers	Primary B cells from peripheral blood	blood
13	chr6:86384400-86386200	Transcr. at gene 5' and 3'	Foreskin Fibroblast Primary Cells skin01	Skin
14	chr6:86384400-86386200	Genic enhancers	Sigmoid Colon	Sigmoid Colon
15	chr6:86384400-86386400	Flanking Active TSS	Skeletal Muscle Female	skeletal muscle
16	chr6:86384400-86386800	Transcr. at gene 5' and 3'	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
17	chr6:86384400-86386800	Transcr. at gene 5' and 3'	iPS-15b Cell Line	embryonic stem cell
18	chr6:86384400-86387000	Transcr. at gene 5' and 3'	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
19	chr6:86384400-86387200	Transcr. at gene 5' and 3'	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
20	chr6:86384400-86387400	Transcr. at gene 5' and 3'	Primary T helper cells PMA-I stimulated	--
21	chr6:86384400-86387800	Transcr. at gene 5' and 3'	HUES48 Cell Line	embryonic stem cell
22	chr6:86384400-86388000	Transcr. at gene 5' and 3'	HUES64 Cell Line	embryonic stem cell
23	chr6:86384600-86386000	Enhancers	Placenta Amnion	Placenta Amnion
24	chr6:86384600-86387400	Transcr. at gene 5' and 3'	H1 Cell Line	embryonic stem cell
25	chr6:86384600-86388000	Transcr. at gene 5' and 3'	iPS-18 Cell Line	embryonic stem cell
26	chr6:86384800-86385800	Enhancers	Primary T cells effector/memory enriched fromperipheralblood	blood
27	chr6:86384800-86385800	Transcr. at gene 5' and 3'	Stomach Smooth Muscle	stomach
28	chr6:86384800-86386200	Enhancers	Spleen	Spleen
29	chr6:86384800-86387400	Transcr. at gene 5' and 3'	Foreskin Keratinocyte Primary Cells skin03	Skin
30	chr6:86384800-86387600	Transcr. at gene 5' and 3'	K562	blood
31	chr6:86384800-86387800	Transcr. at gene 5' and 3'	Dnd41	blood
32	chr6:86384800-86388000	Transcr. at gene 5' and 3'	ES-I3 Cell Line	embryonic stem cell
33	chr6:86384800-86388000	Transcr. at gene 5' and 3'	NH-A	brain
34	chr6:86384800-86388200	Transcr. at gene 5' and 3'	Muscle Satellite Cultured Cells	--
35	chr6:86384800-86388200	Active TSS	Right Atrium	heart
36	chr6:86384800-86388400	Transcr. at gene 5' and 3'	HUES6 Cell Line	embryonic stem cell
37	chr6:86385000-86385800	Flanking Active TSS	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
38	chr6:86385000-86385800	Transcr. at gene 5' and 3'	Primary T regulatory cells fromperipheralblood	blood
39	chr6:86385000-86385800	Genic enhancers	Fetal Stomach	stomach
40	chr6:86385000-86385800	Weak transcription	Stomach Mucosa	stomach
41	chr6:86385000-86386000	Transcr. at gene 5' and 3'	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
42	chr6:86385000-86386000	Transcr. at gene 5' and 3'	Primary hematopoietic stem cells G-CSF-mobilized Male	--
43	chr6:86385000-86386000	Transcr. at gene 5' and 3'	HSMMtube	muscle
44	chr6:86385000-86386600	Transcr. at gene 5' and 3'	Primary B cells from cord blood	blood
45	chr6:86385000-86386600	Transcr. at gene 5' and 3'	Foreskin Keratinocyte Primary Cells skin02	Skin
46	chr6:86385000-86386800	Transcr. at gene 5' and 3'	HepG2	liver
47	chr6:86385000-86386800	Transcr. at gene 5' and 3'	NHLF	lung
48	chr6:86385000-86387000	Enhancers	Primary neutrophils fromperipheralblood	blood
49	chr6:86385000-86387000	Transcr. at gene 5' and 3'	HUVEC	blood vessel
50	chr6:86385000-86387200	Transcr. at gene 5' and 3'	IMR90 fetal lung fibroblasts Cell Line	lung

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