Variant report

Variant	rs6884652
Chromosome Location	chr5:37170178-37170179
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	chr5:37161788..37164617-chr5:37168284..37171187,2	K562	blood:

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-NUP155-3	chr5:37170143-37170433	NONHSAT101055

Variant related genes	Relation type
ENSG00000197603	Chromatin interaction

Extended variants
information (count: 25 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:9)

rs_ID	r²[population]
rs10491422	1.00[ASW][hapmap];0.92[LWK][hapmap];1.00[YRI][hapmap];0.95[AFR][1000 genomes]
rs10512663	1.00[ASW][hapmap];0.92[LWK][hapmap];1.00[YRI][hapmap];0.97[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs2365840	1.00[YRI][hapmap];0.95[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs2365843	0.95[AFR][1000 genomes]
rs57396930	0.87[AFR][1000 genomes]
rs59471160	0.82[AFR][1000 genomes]
rs6877843	1.00[YRI][hapmap];0.95[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs6890929	0.89[ASW][hapmap];0.96[LWK][hapmap];1.00[MKK][hapmap];0.87[YRI][hapmap];0.84[AFR][1000 genomes]
rs7728164	0.81[AFR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:16 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv525478	chr5:36804225-37349895	Strong transcription Transcr. at gene 5' and 3' Active TSS Weak transcription Enhancers Flanking Active TSS ZNF genes & repeats Bivalent Enhancer Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	66 gene(s)	inside rSNPs	diseases
2	esv1793961	chr5:36866835-37361728	Weak transcription Strong transcription Enhancers Flanking Active TSS Active TSS Transcr. at gene 5' and 3' Bivalent Enhancer ZNF genes & repeats Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	65 gene(s)	inside rSNPs	diseases
3	nsv530225	chr5:36886635-37331912	Weak transcription Strong transcription ZNF genes & repeats Enhancers Active TSS Flanking Active TSS Genic enhancers Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	28 gene(s)	inside rSNPs	diseases
4	nsv1024051	chr5:36899712-37303001	Weak transcription Enhancers Strong transcription ZNF genes & repeats Active TSS Genic enhancers Flanking Active TSS 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 target site	27 gene(s)	inside rSNPs	diseases
5	nsv537725	chr5:36899712-37303001	Strong transcription Enhancers Weak transcription ZNF genes & repeats Active TSS Flanking Active TSS Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	27 gene(s)	inside rSNPs	diseases
6	nsv530226	chr5:36906377-37606367	Weak transcription Enhancers Strong transcription ZNF genes & repeats Active TSS Bivalent/Poised TSS Flanking Active TSS Genic enhancers Bivalent Enhancer Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	45 gene(s)	inside rSNPs	diseases
7	esv1802391	chr5:36958598-37242600	Strong transcription Weak transcription Enhancers Flanking Active TSS Genic enhancers ZNF genes & repeats Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Active TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	8 gene(s)	inside rSNPs	diseases
8	nsv534064	chr5:37054962-37586210	Active TSS Strong transcription Flanking Active TSS Weak transcription Enhancers ZNF genes & repeats Genic enhancers Bivalent/Poised TSS Bivalent Enhancer Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	44 gene(s)	inside rSNPs	diseases
9	nsv881511	chr5:37088627-37552852	Strong transcription Weak transcription Enhancers ZNF genes & repeats Flanking Active TSS Active TSS Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	43 gene(s)	inside rSNPs	diseases
10	nsv597823	chr5:37111565-37430365	Strong transcription Flanking Active TSS Weak transcription Active TSS ZNF genes & repeats Enhancers Genic enhancers Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	42 gene(s)	inside rSNPs	diseases
11	nsv1026554	chr5:37112133-37734859	Strong transcription Weak transcription Active TSS Flanking Active TSS Enhancers Bivalent/Poised TSS ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	45 gene(s)	inside rSNPs	diseases
12	nsv537726	chr5:37112133-37734859	Weak transcription Strong transcription Enhancers Active TSS Genic enhancers Flanking Active TSS Bivalent Enhancer 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	45 gene(s)	inside rSNPs	diseases
13	nsv1025988	chr5:37115142-37586211	Strong transcription Weak transcription ZNF genes & repeats Genic enhancers Enhancers Active TSS Flanking Active TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	43 gene(s)	inside rSNPs	diseases
14	nsv537727	chr5:37115142-37586211	Strong transcription Active TSS Weak transcription Flanking Active TSS Enhancers ZNF genes & repeats Transcr. at gene 5' and 3' Genic enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	43 gene(s)	inside rSNPs	diseases
15	nsv830265	chr5:37152221-37312233	Strong transcription Active TSS Weak transcription Flanking Active TSS Enhancers ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	23 gene(s)	inside rSNPs	diseases
16	nsv530227	chr5:37157106-37571999	Weak transcription Strong transcription Flanking Active TSS ZNF genes & repeats Enhancers Active TSS Genic enhancers Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	42 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:120 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr5:37112200-37198200	Weak transcription	Small Intestine	intestine
2	chr5:37113600-37222200	Weak transcription	Psoas Muscle	Psoas
3	chr5:37134200-37171200	Weak transcription	Colonic Mucosa	Colon
4	chr5:37136200-37197200	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
5	chr5:37137400-37174000	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
6	chr5:37138400-37196800	Weak transcription	H1 Cell Line	embryonic stem cell
7	chr5:37138600-37179600	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
8	chr5:37143400-37189600	Weak transcription	ES-I3 Cell Line	embryonic stem cell
9	chr5:37144400-37171400	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
10	chr5:37146400-37174000	Weak transcription	GM12878-XiMat	blood
11	chr5:37147200-37200600	Strong transcription	HSMM	muscle
12	chr5:37148000-37182000	Strong transcription	Foreskin Melanocyte Primary Cells skin03	Skin
13	chr5:37148600-37189400	Strong transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
14	chr5:37150600-37176400	Strong transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
15	chr5:37151600-37197400	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
16	chr5:37153000-37170600	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
17	chr5:37157400-37171400	Weak transcription	iPS-20b Cell Line	embryonic stem cell
18	chr5:37158000-37177600	Weak transcription	Fetal Brain Male	brain
19	chr5:37159600-37197400	Strong transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
20	chr5:37161000-37207200	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
21	chr5:37161200-37174200	Strong transcription	Muscle Satellite Cultured Cells	--
22	chr5:37161200-37179400	Strong transcription	H9 Derived Neuron Cultured Cells	ES cell derived
23	chr5:37161200-37183800	Strong transcription	Dnd41	blood
24	chr5:37161200-37197400	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
25	chr5:37161400-37178200	Strong transcription	NHDF-Ad	bronchial
26	chr5:37161600-37171600	Strong transcription	Hela-S3	cervix
27	chr5:37161600-37177600	Strong transcription	Fetal Brain Female	brain
28	chr5:37161600-37179600	Strong transcription	Ganglion Eminence derived primary cultured neurospheres	brain
29	chr5:37162000-37179800	Strong transcription	Placenta	Placenta
30	chr5:37162200-37179800	Strong transcription	Fetal Muscle Leg	muscle
31	chr5:37162400-37188600	Strong transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
32	chr5:37162600-37178600	Strong transcription	Primary Natural Killer cells fromperipheralblood	blood
33	chr5:37162600-37180200	Strong transcription	Breast Myoepithelial Primary Cells	Breast
34	chr5:37162600-37197400	Strong transcription	Adipose Nuclei	Adipose
35	chr5:37163000-37179800	Strong transcription	Fetal Thymus	thymus
36	chr5:37163200-37178000	Strong transcription	Duodenum Smooth Muscle	Duodenum
37	chr5:37163200-37179600	Strong transcription	Skeletal Muscle Female	skeletal muscle
38	chr5:37163400-37177000	Strong transcription	Primary hematopoietic stem cells	blood
39	chr5:37165200-37171800	Strong transcription	Brain Angular Gyrus	brain
40	chr5:37165200-37179600	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
41	chr5:37165400-37179600	Strong transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
42	chr5:37166400-37176600	Strong transcription	NH-A	brain
43	chr5:37166400-37198400	Weak transcription	Stomach Mucosa	stomach
44	chr5:37166400-37213600	Weak transcription	HepG2	liver
45	chr5:37166600-37197400	Strong transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
46	chr5:37167000-37171200	Weak transcription	HMEC	breast
47	chr5:37167000-37171800	Strong transcription	HUES64 Cell Line	embryonic stem cell
48	chr5:37167000-37194800	Strong transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
49	chr5:37167200-37175600	Strong transcription	IMR90 fetal lung fibroblasts Cell Line	lung
50	chr5:37167200-37179400	Strong transcription	Fetal Muscle Trunk	muscle

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