Variant report

Variant	rs6898133
Chromosome Location	chr5:112058410-112058411
allele	C/G
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:7)
LncRNA
region (count:0)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

No data

(count:7 , 50 per page) page: 1

No.	Distal block	Cell Line	Cell type
1	chr5:112056712..112059185-chr5:112067106..112069826,2	K562	blood:
2	chr5:112040021..112044841-chr5:112056606..112060085,6	K562	blood:
3	chr5:112038553..112041521-chr5:112056606..112058817,2	K562	blood:
4	chr5:112058057..112061004-chr5:112174922..112177064,2	K562	blood:
5	chr5:112041705..112044841-chr5:112058087..112059989,3	K562	blood:
6	chr5:112043098..112044806-chr5:112058262..112061694,3	MCF-7	breast:
7	chr5:112056525..112058948-chr5:112060901..112062604,2	K562	blood:

No data

Variant related genes	Relation type
ENSG00000134982	Chromatin interaction

Extended variants
information (count: 69 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:66)

rs_ID	r²[population]
rs10073398	0.84[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs10075281	0.85[CEU][hapmap];0.84[EUR][1000 genomes]
rs10075323	0.84[EUR][1000 genomes]
rs10075377	0.84[EUR][1000 genomes]
rs10076641	0.89[AFR][1000 genomes];0.98[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10463643	0.85[CHB][hapmap];0.84[JPT][hapmap];0.89[ASN][1000 genomes]
rs11241182	0.96[CEU][hapmap];0.80[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs11241184	0.82[EUR][1000 genomes]
rs11749632	0.81[EUR][1000 genomes]
rs11954856	0.85[CEU][hapmap];0.92[CHB][hapmap];0.91[JPT][hapmap];0.85[AMR][1000 genomes];0.90[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs12513804	0.85[CEU][hapmap];0.93[CHB][hapmap];0.92[JPT][hapmap];0.92[AMR][1000 genomes];0.91[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs12659119	0.81[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs12719151	0.80[CEU][hapmap];0.92[CHB][hapmap];0.92[JPT][hapmap];0.85[AMR][1000 genomes];0.85[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs1441375	0.93[CHB][hapmap];1.00[JPT][hapmap];0.88[ASN][1000 genomes]
rs1465910	0.89[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.86[YRI][hapmap];0.96[AMR][1000 genomes];0.95[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs1661035	1.00[CHB][hapmap];1.00[JPT][hapmap];0.98[ASN][1000 genomes]
rs1661036	1.00[ASN][1000 genomes]
rs1816769	0.89[CEU][hapmap];0.82[YRI][hapmap];0.84[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs1974786	0.84[CEU][hapmap]
rs2020383	0.85[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.87[AMR][1000 genomes];0.90[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs2289484	0.80[CEU][hapmap];0.81[EUR][1000 genomes]
rs2431242	0.86[EUR][1000 genomes]
rs2439591	1.00[CHB][hapmap];0.91[JPT][hapmap]
rs2545162	0.85[CHB][hapmap]
rs2545165	0.86[CHB][hapmap]
rs2546106	0.80[CEU][hapmap]
rs2546108	0.80[CEU][hapmap]
rs2707763	0.81[EUR][1000 genomes]
rs2900066	0.91[AMR][1000 genomes];0.87[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs2909786	0.89[CEU][hapmap];0.93[CHB][hapmap];0.82[EUR][1000 genomes]
rs2909787	0.89[CEU][hapmap];0.93[CHB][hapmap];0.82[EUR][1000 genomes]
rs2909958	0.85[CEU][hapmap];0.93[CHB][hapmap];0.82[EUR][1000 genomes]
rs2952615	0.85[CHB][hapmap]
rs35130225	0.86[EUR][1000 genomes]
rs351771	0.92[CHB][hapmap]
rs3846716	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs396321	0.83[CEU][hapmap]
rs4099181	0.85[CEU][hapmap];1.00[CHB][hapmap];0.91[JPT][hapmap];0.82[YRI][hapmap];0.85[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs41115	0.92[CHB][hapmap]
rs411356	0.92[CHB][hapmap]
rs42427	0.92[CHB][hapmap]
rs464002	0.93[CHB][hapmap];1.00[JPT][hapmap];0.93[ASN][1000 genomes]
rs464708	0.85[CHB][hapmap]
rs465899	0.92[CHB][hapmap]
rs468179	1.00[ASN][1000 genomes]
rs4705559	0.81[EUR][1000 genomes]
rs4705573	0.82[CEU][hapmap];0.84[EUR][1000 genomes]
rs4705609	0.87[AMR][1000 genomes];0.87[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs4705815	0.80[CEU][hapmap];0.92[CHB][hapmap];0.92[JPT][hapmap];0.81[AMR][1000 genomes];0.86[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs4705816	0.92[CHB][hapmap];0.89[JPT][hapmap];0.85[AMR][1000 genomes];0.86[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs544243	0.81[CEU][hapmap]
rs56335290	0.89[ASN][1000 genomes]
rs569940	0.81[EUR][1000 genomes]
rs62364017	0.83[EUR][1000 genomes]
rs6594643	0.92[JPT][hapmap];0.91[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs6594644	0.93[CHB][hapmap];0.92[JPT][hapmap];0.90[AMR][1000 genomes];0.85[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs6864688	0.81[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.96[YRI][hapmap];0.89[AFR][1000 genomes];0.87[AMR][1000 genomes];0.87[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs6867243	0.89[EUR][1000 genomes]
rs6894351	0.92[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.88[YRI][hapmap];0.96[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7704618	0.81[EUR][1000 genomes]
rs861674	0.92[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.93[AMR][1000 genomes];0.94[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs866006	0.85[CHB][hapmap]
rs9326862	0.92[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.91[AMR][1000 genomes];0.92[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs9326863	0.88[CEU][hapmap];0.87[EUR][1000 genomes]
rs953916	0.81[EUR][1000 genomes]
rs971517	0.85[AMR][1000 genomes];0.85[EUR][1000 genomes];0.88[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:3 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv830450	chr5:111964170-112134510	Active TSS Enhancers Weak transcription Strong transcription Flanking Active TSS Genic enhancers ZNF genes & repeats Bivalent Enhancer Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	18 gene(s)	inside rSNPs	diseases
2	nsv462387	chr5:112053911-112124369	Flanking Active TSS Enhancers Active TSS Weak transcription Strong transcription Genic enhancers Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region	8 gene(s)	inside rSNPs	diseases
3	nsv599393	chr5:112053911-112124369	Strong transcription Active TSS Weak transcription Enhancers Genic enhancers ZNF genes & repeats Flanking Active TSS Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region	8 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:51 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr5:112044800-112058800	Weak transcription	Fetal Muscle Trunk	muscle
2	chr5:112045400-112062000	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
3	chr5:112045600-112060200	Weak transcription	NHLF	lung
4	chr5:112045600-112061600	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
5	chr5:112045600-112063600	Weak transcription	Ovary	ovary
6	chr5:112046000-112069200	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
7	chr5:112047000-112060400	Weak transcription	Primary B cells from peripheral blood	blood
8	chr5:112047000-112061600	Weak transcription	Aorta	Aorta
9	chr5:112047000-112066000	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
10	chr5:112047400-112058600	Weak transcription	Stomach Smooth Muscle	stomach
11	chr5:112047400-112060400	Weak transcription	Fetal Intestine Large	intestine
12	chr5:112047400-112072400	Weak transcription	Thymus	Thymus
13	chr5:112047600-112061600	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
14	chr5:112048400-112061200	Weak transcription	Fetal Intestine Small	intestine
15	chr5:112049200-112061600	Weak transcription	Fetal Stomach	stomach
16	chr5:112049600-112060400	Weak transcription	Lung	lung
17	chr5:112051200-112058600	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
18	chr5:112052000-112072600	Weak transcription	Primary B cells from cord blood	blood
19	chr5:112052600-112072600	Weak transcription	Primary T cells from cord blood	blood
20	chr5:112054400-112060600	Weak transcription	Small Intestine	intestine
21	chr5:112054400-112062200	Weak transcription	Right Ventricle	heart
22	chr5:112054400-112073200	Weak transcription	Pancreas	Pancrea
23	chr5:112054600-112061400	Weak transcription	ES-I3 Cell Line	embryonic stem cell
24	chr5:112054800-112058600	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
25	chr5:112054800-112060200	Weak transcription	Skeletal Muscle Male	skeletal muscle
26	chr5:112055000-112061600	Weak transcription	Breast Myoepithelial Primary Cells	Breast
27	chr5:112056200-112059600	Weak transcription	Primary T killer memory cells from peripheral blood	blood
28	chr5:112056400-112058600	Weak transcription	Brain Anterior Caudate	brain
29	chr5:112056400-112060800	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
30	chr5:112056400-112061800	Weak transcription	Brain Inferior Temporal Lobe	brain
31	chr5:112056600-112066200	Weak transcription	Duodenum Smooth Muscle	Duodenum
32	chr5:112056600-112067400	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
33	chr5:112056800-112061800	Weak transcription	Primary T helper cells fromperipheralblood	blood
34	chr5:112056800-112063800	Weak transcription	Primary T helper naive cells from peripheral blood	blood
35	chr5:112057200-112059000	Enhancers	Brain Hippocampus Middle	brain
36	chr5:112057400-112059200	Enhancers	Colon Smooth Muscle	Colon
37	chr5:112057400-112060600	Weak transcription	Cortex derived primary cultured neurospheres	brain
38	chr5:112057400-112064800	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
39	chr5:112058000-112058600	Enhancers	Brain Cingulate Gyrus	brain
40	chr5:112058000-112059000	Enhancers	Primary T cells fromperipheralblood	blood
41	chr5:112058000-112059400	Enhancers	Primary T helper cells PMA-I stimulated	--
42	chr5:112058200-112058800	Enhancers	Primary T helper memory cells from peripheral blood 2	blood
43	chr5:112058200-112059000	Enhancers	Psoas Muscle	Psoas
44	chr5:112058200-112059800	Enhancers	Brain Substantia Nigra	brain
45	chr5:112058200-112059800	Enhancers	Skeletal Muscle Female	skeletal muscle
46	chr5:112058400-112058600	Enhancers	Fetal Brain Female	brain
47	chr5:112058400-112058800	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
48	chr5:112058400-112059200	Enhancers	Left Ventricle	heart
49	chr5:112058400-112059200	Enhancers	Right Atrium	heart
50	chr5:112058400-112059400	Enhancers	Sigmoid Colon	Sigmoid Colon

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