Variant report

Variant	rs10739237
Chromosome Location	chr9:110051506-110051507
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr9:110049581..110051989-chr9:110070046..110072937,2	MCF-7	breast:
2	chr9:110050203..110052215-chr9:110053888..110055858,2	K562	blood:
3	chr9:110050921..110052628-chr9:110056459..110059114,2	MCF-7	breast:
4	chr9:110049612..110053509-chr9:110059334..110062914,3	K562	blood:

Extended variants
information (count: 56 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:50)

rs_ID	r²[population]
rs10521083	0.82[ASN][1000 genomes]
rs10732368	0.85[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs10739234	0.82[ASN][1000 genomes]
rs10739238	0.84[ASN][1000 genomes]
rs10759222	0.83[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs10759223	0.83[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs10759225	0.93[AMR][1000 genomes];0.94[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs10759226	0.87[ASN][1000 genomes]
rs10759227	0.86[AMR][1000 genomes];0.90[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs10816486	0.82[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs10816487	0.82[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs10816492	0.96[AMR][1000 genomes];0.93[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs10816493	0.82[ASN][1000 genomes]
rs10978798	0.81[ASN][1000 genomes]
rs1323808	0.87[ASN][1000 genomes]
rs1323809	0.96[AMR][1000 genomes];0.93[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs1408135	0.89[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs1535765	0.85[ASN][1000 genomes]
rs1805332	0.82[ASN][1000 genomes]
rs1805334	0.82[ASN][1000 genomes]
rs1805335	0.87[ASN][1000 genomes]
rs1886134	0.82[ASN][1000 genomes]
rs1969798	0.84[ASN][1000 genomes]
rs1980725	0.85[ASN][1000 genomes]
rs2147071	0.85[ASN][1000 genomes]
rs2147072	0.82[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs2417785	0.87[ASN][1000 genomes]
rs3818367	0.82[ASN][1000 genomes]
rs4278207	0.85[ASN][1000 genomes]
rs4625087	0.87[ASN][1000 genomes]
rs4978404	0.82[ASN][1000 genomes]
rs4978406	0.82[ASN][1000 genomes]
rs4978844	0.82[ASN][1000 genomes]
rs4978849	0.82[ASN][1000 genomes]
rs7029997	0.85[ASN][1000 genomes]
rs7030169	0.85[ASN][1000 genomes]
rs7030555	0.85[ASN][1000 genomes]
rs7030631	0.85[ASN][1000 genomes]
rs7035611	0.82[ASN][1000 genomes]
rs7035725	0.81[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs7038737	0.85[ASN][1000 genomes]
rs7039041	0.85[ASN][1000 genomes]
rs7041497	0.82[ASN][1000 genomes]
rs7043962	0.82[ASN][1000 genomes]
rs7046950	0.85[ASN][1000 genomes]
rs7856112	0.81[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs7856227	0.82[ASN][1000 genomes]
rs7859769	0.87[ASN][1000 genomes]
rs942292	0.87[ASN][1000 genomes]
rs942293	0.82[ASN][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	nsv869351	chr9:109593212-110191170	Active TSS Genic enhancers Weak transcription Strong transcription Enhancers Flanking Active TSS Transcr. at gene 5' and 3' Bivalent Enhancer ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	34 gene(s)	inside rSNPs	diseases
2	nsv530948	chr9:109760752-110413602	Weak transcription Flanking Active TSS Enhancers Active TSS Genic enhancers Strong transcription Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	57 gene(s)	inside rSNPs	diseases
3	nsv831682	chr9:109937181-110075453	Enhancers Flanking Active TSS Weak transcription Genic enhancers Active TSS Strong transcription ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	14 gene(s)	inside rSNPs	diseases
4	nsv893698	chr9:109998563-110052660	Enhancers Flanking Active TSS Active TSS Weak transcription Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3' Genic enhancers Bivalent Enhancer Strong transcription Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases
5	nsv508560	chr9:110006490-110060539	Weak transcription Enhancers Active TSS Flanking Active TSS Bivalent Enhancer Genic enhancers Transcr. at gene 5' and 3' Strong transcription ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases
6	nsv519266	chr9:110049477-110085255	Strong transcription Weak transcription Genic enhancers Enhancers Flanking Active TSS Active TSS Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	1 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	chr9:110047200-110052400	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
2	chr9:110047200-110052600	Enhancers	Primary B cells from peripheral blood	blood
3	chr9:110047200-110054600	Weak transcription	Lung	lung
4	chr9:110047600-110067200	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
5	chr9:110047800-110051800	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
6	chr9:110047800-110054200	Enhancers	Primary T helper naive cells fromperipheralblood	blood
7	chr9:110048000-110053200	Weak transcription	Fetal Thymus	thymus
8	chr9:110048000-110056000	Weak transcription	Aorta	Aorta
9	chr9:110048000-110058400	Enhancers	Primary T helper memory cells from peripheral blood 2	blood
10	chr9:110048400-110051800	Enhancers	Primary T cells fromperipheralblood	blood
11	chr9:110048400-110052800	Enhancers	Primary T killer naive cells fromperipheralblood	blood
12	chr9:110048400-110058000	Enhancers	Primary T killer memory cells from peripheral blood	blood
13	chr9:110048600-110051600	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
14	chr9:110048600-110052000	Weak transcription	H1 Cell Line	embryonic stem cell
15	chr9:110048600-110052000	Weak transcription	H9 Cell Line	embryonic stem cell
16	chr9:110048600-110052000	Active TSS	GM12878-XiMat	blood
17	chr9:110048600-110052200	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
18	chr9:110048600-110058000	Enhancers	Primary T helper naive cells from peripheral blood	blood
19	chr9:110048800-110051800	Weak transcription	Brain Substantia Nigra	brain
20	chr9:110048800-110051800	Weak transcription	Fetal Lung	lung
21	chr9:110048800-110052000	Weak transcription	Brain Hippocampus Middle	brain
22	chr9:110048800-110052000	Weak transcription	Skeletal Muscle Male	skeletal muscle
23	chr9:110048800-110052200	Weak transcription	Brain Inferior Temporal Lobe	brain
24	chr9:110048800-110052600	Enhancers	Primary T helper 17 cells PMA-I stimulated	--
25	chr9:110048800-110052600	Weak transcription	Rectal Mucosa Donor 31	rectum
26	chr9:110048800-110052800	Enhancers	Primary T regulatory cells fromperipheralblood	blood
27	chr9:110048800-110055000	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
28	chr9:110048800-110055200	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
29	chr9:110048800-110055200	Weak transcription	HSMMtube	muscle
30	chr9:110048800-110056800	Weak transcription	Duodenum Mucosa	Duodenum
31	chr9:110048800-110058600	Enhancers	Primary T helper cells PMA-I stimulated	--
32	chr9:110048800-110059200	Enhancers	HepG2	liver
33	chr9:110048800-110061000	Enhancers	Primary T helper cells fromperipheralblood	blood
34	chr9:110048800-110067800	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
35	chr9:110048800-110069600	Weak transcription	Fetal Brain Male	brain
36	chr9:110049000-110051600	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
37	chr9:110049000-110051800	Weak transcription	Cortex derived primary cultured neurospheres	brain
38	chr9:110049000-110052200	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
39	chr9:110049000-110052200	Weak transcription	Fetal Kidney	kidney
40	chr9:110049000-110052200	Weak transcription	Rectal Smooth Muscle	rectum
41	chr9:110049000-110052400	Weak transcription	Stomach Smooth Muscle	stomach
42	chr9:110049000-110052600	Weak transcription	Placenta Amnion	Placenta Amnion
43	chr9:110049000-110052800	Enhancers	Primary T cells from cord blood	blood
44	chr9:110049000-110055000	Weak transcription	Fetal Brain Female	brain
45	chr9:110049000-110055400	Weak transcription	HUES6 Cell Line	embryonic stem cell
46	chr9:110049000-110058800	Enhancers	Primary T helper memory cells from peripheral blood 1	blood
47	chr9:110049000-110061200	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
48	chr9:110049000-110061400	Weak transcription	NH-A	brain
49	chr9:110049000-110063000	Enhancers	Liver	Liver
50	chr9:110049000-110063200	Weak transcription	Primary hematopoietic stem cells short term culture	blood

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