Variant report

Variant	rs6881038
Chromosome Location	chr5:179272368-179272369
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr5:179271128..179272672-chr5:179273888..179276706,2	K562	blood:
2	chr5:179194529..179197142-chr5:179270965..179273520,2	MCF-7	breast:
3	chr5:179265203..179267411-chr5:179270940..179272885,3	MCF-7	breast:

Variant related genes	Relation type
ENSG00000252202	Chromatin interaction
ENSG00000161021	Chromatin interaction
ENSG00000161010	Chromatin interaction

Extended variants
information (count: 23 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:13)

rs_ID	r²[population]
rs269456	0.88[AFR][1000 genomes]
rs269462	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs375186	0.93[AFR][1000 genomes];0.86[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs437806	0.91[AFR][1000 genomes];0.86[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs55920097	0.94[AFR][1000 genomes];0.86[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs57322113	0.88[EUR][1000 genomes]
rs60356119	0.81[EUR][1000 genomes]
rs66959508	0.94[AFR][1000 genomes];0.86[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs6883240	0.88[EUR][1000 genomes]
rs6883858	0.88[EUR][1000 genomes]
rs72813738	0.88[EUR][1000 genomes]
rs72813740	0.88[EUR][1000 genomes]
rs7709069	0.93[AFR][1000 genomes];0.86[AMR][1000 genomes];0.88[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:10 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv949554	chr5:178832325-179309513	Transcr. at gene 5' and 3' Weak transcription Strong transcription Active TSS Enhancers Genic enhancers ZNF genes & repeats Flanking Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	312 gene(s)	inside rSNPs	diseases
2	nsv883270	chr5:178951106-179350387	Weak transcription Strong transcription Flanking Active TSS Enhancers Genic enhancers Active TSS Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	312 gene(s)	inside rSNPs	diseases
3	nsv531997	chr5:179107599-179588082	Enhancers Strong transcription Flanking Active TSS ZNF genes & repeats Weak transcription Genic enhancers Flanking Bivalent TSS/Enh Active TSS Bivalent/Poised TSS Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	339 gene(s)	inside rSNPs	diseases
4	nsv469579	chr5:179184831-179360191	Genic enhancers Active TSS Weak transcription Enhancers Flanking Active TSS Strong transcription Bivalent/Poised TSS ZNF genes & repeats Bivalent Enhancer Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	182 gene(s)	inside rSNPs	diseases
5	nsv883274	chr5:179186397-179310330	Strong transcription Weak transcription Enhancers ZNF genes & repeats Flanking Active TSS Transcr. at gene 5' and 3' Active TSS Genic enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	178 gene(s)	inside rSNPs	diseases
6	nsv883276	chr5:179193598-179310330	Flanking Active TSS Strong transcription Weak transcription ZNF genes & repeats Genic enhancers Enhancers Active TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	178 gene(s)	inside rSNPs	diseases
7	nsv883277	chr5:179193598-179350387	Genic enhancers Enhancers Weak transcription Flanking Active TSS Strong transcription Transcr. at gene 5' and 3' ZNF genes & repeats Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	182 gene(s)	inside rSNPs	diseases
8	nsv1030437	chr5:179235423-179649944	Enhancers Strong transcription Flanking Active TSS Active TSS Weak transcription ZNF genes & repeats Bivalent Enhancer Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	189 gene(s)	inside rSNPs	diseases
9	nsv537982	chr5:179235423-179649944	Active TSS Weak transcription Flanking Active TSS Genic enhancers Strong transcription Bivalent/Poised TSS Enhancers Bivalent Enhancer ZNF genes & repeats Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	189 gene(s)	inside rSNPs	diseases
10	nsv948909	chr5:179249099-179772640	Weak transcription Active TSS Flanking Active TSS Enhancers Strong transcription ZNF genes & repeats Genic enhancers Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	175 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	chr5:179250200-179272800	Weak transcription	Fetal Brain Male	brain
2	chr5:179258200-179274800	Weak transcription	Fetal Heart	heart
3	chr5:179262600-179279400	Strong transcription	Brain Inferior Temporal Lobe	brain
4	chr5:179263000-179279600	Strong transcription	Brain Anterior Caudate	brain
5	chr5:179263000-179279800	Strong transcription	Brain Hippocampus Middle	brain
6	chr5:179263000-179280400	Strong transcription	Breast Myoepithelial Primary Cells	Breast
7	chr5:179263600-179280200	Strong transcription	Colon Smooth Muscle	Colon
8	chr5:179264400-179273800	Weak transcription	K562	blood
9	chr5:179264400-179275000	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
10	chr5:179264400-179275200	Weak transcription	Fetal Kidney	kidney
11	chr5:179264600-179285000	Weak transcription	Psoas Muscle	Psoas
12	chr5:179264800-179274000	Weak transcription	Hela-S3	cervix
13	chr5:179264800-179274800	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
14	chr5:179265000-179275200	Weak transcription	HUVEC	blood vessel
15	chr5:179265000-179285000	Weak transcription	Stomach Mucosa	stomach
16	chr5:179265200-179274400	Weak transcription	Small Intestine	intestine
17	chr5:179265400-179272800	Weak transcription	HSMMtube	muscle
18	chr5:179265400-179273000	Weak transcription	Osteobl	bone
19	chr5:179265400-179274400	Weak transcription	NHEK	skin
20	chr5:179265800-179274800	Weak transcription	NH-A	brain
21	chr5:179266400-179277200	Weak transcription	HMEC	breast
22	chr5:179266800-179275000	Weak transcription	Primary T killer memory cells from peripheral blood	blood
23	chr5:179267000-179277600	Weak transcription	Primary neutrophils fromperipheralblood	blood
24	chr5:179267600-179274400	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
25	chr5:179267800-179273800	Weak transcription	HSMM	muscle
26	chr5:179268000-179272800	Weak transcription	Liver	Liver
27	chr5:179268000-179273400	Weak transcription	iPS-15b Cell Line	embryonic stem cell
28	chr5:179268200-179272800	Weak transcription	NHLF	lung
29	chr5:179268200-179273600	Weak transcription	Primary B cells from cord blood	blood
30	chr5:179268200-179274600	Weak transcription	Thymus	Thymus
31	chr5:179268200-179274800	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
32	chr5:179268200-179280600	Strong transcription	Foreskin Fibroblast Primary Cells skin02	Skin
33	chr5:179268800-179272800	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
34	chr5:179269000-179272600	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
35	chr5:179269000-179272800	Weak transcription	Sigmoid Colon	Sigmoid Colon
36	chr5:179269000-179273000	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
37	chr5:179269000-179273400	Weak transcription	Right Ventricle	heart
38	chr5:179269000-179273400	Weak transcription	HepG2	liver
39	chr5:179269000-179273600	Weak transcription	HUES48 Cell Line	embryonic stem cell
40	chr5:179269000-179273600	Weak transcription	Rectal Mucosa Donor 29	rectum
41	chr5:179269000-179274400	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
42	chr5:179269000-179274600	Weak transcription	Colonic Mucosa	Colon
43	chr5:179269200-179272600	Weak transcription	H1 Cell Line	embryonic stem cell
44	chr5:179269200-179273000	Weak transcription	Primary T cells from cord blood	blood
45	chr5:179269200-179273000	Weak transcription	Primary T helper naive cells from peripheral blood	blood
46	chr5:179269200-179273000	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
47	chr5:179269200-179273400	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
48	chr5:179269200-179274400	Weak transcription	Gastric	stomach
49	chr5:179269400-179272600	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
50	chr5:179269400-179272600	Weak transcription	Left Ventricle	heart

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