Variant report

Variant	rs7029585
Chromosome Location	chr9:100968598-100968599
allele	C/T
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:13)
LncRNA
region (count:0)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

No data

(count:13 , 50 per page) page: 1

No.	Distal block	Cell Line	Cell type
1	chr9:100966722..100970039-chr9:100971164..100974446,3	MCF-7	breast:
2	chr9:100967570..100970499-chr9:100974928..100976883,2	MCF-7	breast:
3	chr9:100954049..100956818-chr9:100965810..100968665,2	MCF-7	breast:
4	chr9:100967704..100968857-chr9:101025808..101026669,3	MCF-7	breast:
5	chr9:100968043..100970056-chr9:100986023..100988818,3	MCF-7	breast:
6	chr9:100967758..100968676-chr9:100977811..100978768,2	MCF-7	breast:
7	chr9:100967687..100968926-chr9:101025676..101026669,6	K562	blood:
8	chr9:100954079..100956725-chr9:100967141..100968739,2	MCF-7	breast:
9	chr9:100967682..100968648-chr9:100977741..100978390,3	MCF-7	breast:
10	chr9:100967414..100970312-chr9:100980747..100984136,3	K562	blood:
11	chr9:100967716..100968659-chr9:101469208..101469729,2	K562	blood:
12	chr9:100968291..100970731-chr9:100972998..100976286,3	MCF-7	breast:
13	chr9:100966646..100969743-chr9:101023259..101026194,3	K562	blood:

No data

Variant related genes	Relation type
ENSG00000106789	Chromatin interaction
ENSG00000095383	Chromatin interaction

Extended variants
information (count: 24 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:18)

rs_ID	r²[population]
rs10818585	0.81[CEU][hapmap]
rs10985377	0.82[AMR][1000 genomes]
rs10985382	0.81[CEU][hapmap]
rs10985441	0.93[GIH][hapmap]
rs2282434	0.95[CHB][hapmap];0.86[JPT][hapmap];0.94[YRI][hapmap];0.93[AFR][1000 genomes];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs2900463	0.87[GIH][hapmap]
rs3739666	0.86[ASW][hapmap];0.93[GIH][hapmap]
rs3739667	0.82[GIH][hapmap]
rs3739668	0.81[CEU][hapmap];0.91[CHB][hapmap];1.00[CHD][hapmap];0.91[JPT][hapmap];0.94[ASN][1000 genomes]
rs3780451	0.94[ASN][1000 genomes]
rs3780452	1.00[ASW][hapmap];1.00[CEU][hapmap];0.95[CHB][hapmap];1.00[CHD][hapmap];0.98[GIH][hapmap];0.91[JPT][hapmap];0.97[LWK][hapmap];0.96[MKK][hapmap];0.98[TSI][hapmap];0.94[YRI][hapmap];0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs3780453	1.00[ASW][hapmap];1.00[CEU][hapmap];0.95[CHB][hapmap];1.00[CHD][hapmap];0.98[GIH][hapmap];0.91[JPT][hapmap];0.97[LWK][hapmap];0.96[MKK][hapmap];0.98[TSI][hapmap];0.94[YRI][hapmap];0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs3780455	0.81[CEU][hapmap];0.91[CHB][hapmap];1.00[CHD][hapmap];1.00[JPT][hapmap];0.97[ASN][1000 genomes]
rs3824453	0.81[CEU][hapmap];0.91[CHB][hapmap];1.00[CHD][hapmap];0.91[JPT][hapmap];0.94[ASN][1000 genomes]
rs4237191	0.94[ASN][1000 genomes]
rs4743186	0.93[GIH][hapmap]
rs6478593	0.80[EUR][1000 genomes]
rs7854562	0.80[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:6 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1053729	chr9:100909554-100997718	Weak transcription Strong transcription Enhancers Genic enhancers Bivalent/Poised TSS Flanking Active TSS Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	9 gene(s)	inside rSNPs	diseases
2	nsv520067	chr9:100927161-100978542	Genic enhancers Enhancers Active TSS Weak transcription Strong transcription Flanking Active TSS Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region miRNA target site	9 gene(s)	inside rSNPs	diseases
3	nsv430085	chr9:100928245-101339645	Flanking Active TSS Enhancers Weak transcription Genic enhancers Strong transcription Bivalent/Poised TSS ZNF genes & repeats Bivalent Enhancer Active TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	19 gene(s)	inside rSNPs	diseases
4	nsv831663	chr9:100941048-101109492	Weak transcription Flanking Active TSS Strong transcription Enhancers Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Genic enhancers Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	17 gene(s)	inside rSNPs	diseases
5	nsv1045780	chr9:100943318-101080389	Flanking Bivalent TSS/Enh Weak transcription Enhancers Flanking Active TSS Genic enhancers Strong transcription Active TSS Bivalent/Poised TSS Transcr. at gene 5' and 3' Bivalent Enhancer ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	17 gene(s)	inside rSNPs	diseases
6	nsv540180	chr9:100943318-101080389	Enhancers Weak transcription Strong transcription Active TSS Transcr. at gene 5' and 3' Genic enhancers Flanking Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	17 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:102 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:100955800-100970400	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
2	chr9:100955800-100970400	Weak transcription	Left Ventricle	heart
3	chr9:100955800-100970400	Weak transcription	Rectal Smooth Muscle	rectum
4	chr9:100955800-100970600	Weak transcription	Ovary	ovary
5	chr9:100955800-100970600	Weak transcription	Right Ventricle	heart
6	chr9:100955800-100975000	Weak transcription	Primary B cells from cord blood	blood
7	chr9:100955800-100975000	Weak transcription	NHDF-Ad	bronchial
8	chr9:100955800-100975200	Weak transcription	NH-A	brain
9	chr9:100955800-100975600	Weak transcription	Skeletal Muscle Female	skeletal muscle
10	chr9:100955800-101003200	Weak transcription	Primary hematopoietic stem cells	blood
11	chr9:100956000-100969800	Weak transcription	Primary T cells from cord blood	blood
12	chr9:100956000-100970000	Weak transcription	Primary T helper cells fromperipheralblood	blood
13	chr9:100956000-100970600	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
14	chr9:100956000-100971000	Weak transcription	Duodenum Smooth Muscle	Duodenum
15	chr9:100956000-100981000	Weak transcription	A549	lung
16	chr9:100956200-100970000	Weak transcription	Primary hematopoietic stem cells short term culture	blood
17	chr9:100956200-100973000	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
18	chr9:100958600-100985400	Strong transcription	Primary monocytes fromperipheralblood	blood
19	chr9:100959200-100977000	Strong transcription	HMEC	breast
20	chr9:100959600-100984400	Strong transcription	Osteobl	bone
21	chr9:100959800-100985200	Strong transcription	Monocytes-CD14+_RO01746	blood
22	chr9:100961400-101001400	Weak transcription	Right Atrium	heart
23	chr9:100962000-100969800	Weak transcription	Fetal Lung	lung
24	chr9:100962000-100970800	Strong transcription	HSMM	muscle
25	chr9:100962000-100972600	Weak transcription	Skeletal Muscle Male	skeletal muscle
26	chr9:100962400-100970200	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
27	chr9:100962400-100970400	Weak transcription	HUES48 Cell Line	embryonic stem cell
28	chr9:100962400-100970400	Weak transcription	iPS-15b Cell Line	embryonic stem cell
29	chr9:100962400-100970800	Weak transcription	Thymus	Thymus
30	chr9:100962600-100969800	Weak transcription	Brain Cingulate Gyrus	brain
31	chr9:100962600-100970000	Weak transcription	Brain Substantia Nigra	brain
32	chr9:100962600-100975200	Weak transcription	Brain Anterior Caudate	brain
33	chr9:100962800-100968600	Weak transcription	iPS-20b Cell Line	embryonic stem cell
34	chr9:100962800-100970400	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
35	chr9:100962800-100970600	Weak transcription	H1 Cell Line	embryonic stem cell
36	chr9:100962800-100971000	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
37	chr9:100963200-100970400	Strong transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
38	chr9:100964400-100968600	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
39	chr9:100964400-100971000	Weak transcription	Pancreas	Pancrea
40	chr9:100964800-100969800	Weak transcription	Hela-S3	cervix
41	chr9:100965400-100970000	Weak transcription	NHLF	lung
42	chr9:100965600-100970000	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
43	chr9:100965600-100970000	Weak transcription	Placenta Amnion	Placenta Amnion
44	chr9:100965600-100970000	Weak transcription	Rectal Mucosa Donor 31	rectum
45	chr9:100965600-100970600	Weak transcription	Rectal Mucosa Donor 29	rectum
46	chr9:100965600-100982200	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
47	chr9:100965800-100969600	Weak transcription	Sigmoid Colon	Sigmoid Colon
48	chr9:100965800-100970000	Weak transcription	H9 Cell Line	embryonic stem cell
49	chr9:100965800-100970000	Weak transcription	Spleen	Spleen
50	chr9:100965800-100970200	Weak transcription	Brain Inferior Temporal Lobe	brain

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