Variant report

Variant	rs11596004
Chromosome Location	chr10:97391490-97391491
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 60 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:58)

rs_ID	r²[population]
rs10509687	0.82[CHB][hapmap]
rs10736093	0.86[JPT][hapmap]
rs10748634	0.81[CEU][hapmap];0.92[CHB][hapmap];0.93[JPT][hapmap];0.92[AFR][1000 genomes];0.97[AMR][1000 genomes];0.95[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs10748638	0.84[CHB][hapmap];0.86[JPT][hapmap]
rs10748642	0.86[JPT][hapmap]
rs10748643	0.86[JPT][hapmap]
rs10786228	0.91[CHB][hapmap];0.81[JPT][hapmap]
rs10882646	0.85[CEU][hapmap];0.91[CHB][hapmap];0.87[JPT][hapmap];0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];0.95[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs10882651	0.81[JPT][hapmap]
rs10882652	0.81[JPT][hapmap]
rs10882664	0.81[CEU][hapmap];0.84[CHB][hapmap];0.93[JPT][hapmap]
rs10882665	0.81[CEU][hapmap];0.84[CHB][hapmap];0.93[JPT][hapmap]
rs10882675	0.81[JPT][hapmap]
rs11188414	0.91[CHB][hapmap];0.82[JPT][hapmap]
rs11188497	0.86[JPT][hapmap]
rs11596976	0.88[AFR][1000 genomes];0.95[AMR][1000 genomes];0.90[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs17111041	0.82[CHB][hapmap]
rs1890186	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs1933169	0.85[CEU][hapmap];0.92[CHB][hapmap];0.85[JPT][hapmap];0.84[AFR][1000 genomes];0.91[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs2185818	0.85[JPT][hapmap]
rs2211002	0.81[CEU][hapmap];0.92[CHB][hapmap];0.93[JPT][hapmap];0.92[AFR][1000 genomes];0.98[AMR][1000 genomes];0.90[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs2225893	0.82[CHB][hapmap]
rs2275273	0.92[CHB][hapmap];0.86[JPT][hapmap]
rs2485643	0.95[AMR][1000 genomes];0.94[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs2861149	0.85[CEU][hapmap];0.87[JPT][hapmap];0.81[AFR][1000 genomes];0.91[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs2901873	0.81[CEU][hapmap];0.84[CHB][hapmap];0.93[JPT][hapmap]
rs3750700	0.92[CHB][hapmap];0.86[JPT][hapmap]
rs3750701	0.92[CHB][hapmap];0.86[JPT][hapmap]
rs3793748	0.82[CHB][hapmap]
rs3814159	0.86[JPT][hapmap]
rs3934409	0.86[JPT][hapmap]
rs3949478	0.84[CHB][hapmap];0.93[JPT][hapmap]
rs4244319	0.81[AFR][1000 genomes];0.90[AMR][1000 genomes];0.85[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs4290159	0.91[CHB][hapmap];0.86[JPT][hapmap]
rs4396219	0.86[JPT][hapmap]
rs4431963	0.86[JPT][hapmap]
rs4501930	0.85[CEU][hapmap];0.84[CHB][hapmap];0.81[AFR][1000 genomes];0.91[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs4551688	0.86[JPT][hapmap]
rs4582902	0.86[JPT][hapmap]
rs479505	0.81[AMR][1000 genomes];0.92[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs4918950	0.85[CEU][hapmap];0.92[CHB][hapmap];0.87[JPT][hapmap]
rs4918964	0.83[CHB][hapmap]
rs496426	0.81[CEU][hapmap];0.92[CHB][hapmap];0.86[JPT][hapmap];0.94[AFR][1000 genomes];0.97[AMR][1000 genomes];0.94[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs496641	0.83[EUR][1000 genomes]
rs497331	0.82[CHB][hapmap]
rs540963	0.81[AMR][1000 genomes];0.92[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs546138	0.80[ASN][1000 genomes]
rs549042	0.80[ASN][1000 genomes]
rs571505	0.82[CHB][hapmap]
rs6584027	0.86[JPT][hapmap]
rs7071836	0.86[JPT][hapmap]
rs7072572	0.81[AFR][1000 genomes];0.91[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs7893677	0.85[AMR][1000 genomes]
rs7894648	0.81[JPT][hapmap]
rs7902190	0.81[CHB][hapmap];0.86[JPT][hapmap]
rs7909569	0.85[CEU][hapmap];0.91[CHB][hapmap];0.87[JPT][hapmap];0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs945958	0.84[CEU][hapmap];0.92[CHB][hapmap];0.87[JPT][hapmap];0.93[AMR][1000 genomes];0.93[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs9787589	0.95[AFR][1000 genomes];0.97[AMR][1000 genomes];0.94[EUR][1000 genomes];0.88[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:2 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv526180	chr10:97332195-97511037	Flanking Active TSS Weak transcription Active TSS Enhancers Strong transcription ZNF genes & repeats Transcr. at gene 5' and 3' Genic enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases
2	nsv531923	chr10:97366055-97725757	Enhancers Strong transcription Active TSS Weak transcription Flanking Active TSS Genic enhancers 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 miRNA target site	15 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:125 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr10:97364000-97409200	Strong transcription	Primary T cells from cord blood	blood
2	chr10:97364000-97411000	Strong transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
3	chr10:97364400-97403200	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
4	chr10:97364800-97403400	Strong transcription	Primary T helper cells fromperipheralblood	blood
5	chr10:97364800-97411000	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
6	chr10:97365000-97403000	Strong transcription	HUES6 Cell Line	embryonic stem cell
7	chr10:97365000-97403400	Strong transcription	HUES64 Cell Line	embryonic stem cell
8	chr10:97368400-97393000	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
9	chr10:97376200-97400600	Weak transcription	Pancreatic Islets	Pancreatic Islet
10	chr10:97376400-97411400	Weak transcription	Psoas Muscle	Psoas
11	chr10:97376400-97415200	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
12	chr10:97376600-97415000	Weak transcription	Primary T killer memory cells from peripheral blood	blood
13	chr10:97378200-97391800	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
14	chr10:97378600-97414200	Weak transcription	Fetal Heart	heart
15	chr10:97379800-97403200	Strong transcription	Ganglion Eminence derived primary cultured neurospheres	brain
16	chr10:97380200-97399200	Strong transcription	Foreskin Melanocyte Primary Cells skin03	Skin
17	chr10:97380200-97403200	Strong transcription	Fetal Muscle Leg	muscle
18	chr10:97380200-97403400	Strong transcription	Primary Natural Killer cells fromperipheralblood	blood
19	chr10:97380200-97408800	Strong transcription	HUES48 Cell Line	embryonic stem cell
20	chr10:97380600-97403000	Strong transcription	NH-A	brain
21	chr10:97380600-97403200	Strong transcription	IMR90 fetal lung fibroblasts Cell Line	lung
22	chr10:97380600-97403200	Strong transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
23	chr10:97380600-97408000	Strong transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
24	chr10:97380800-97409000	Strong transcription	Osteobl	bone
25	chr10:97381000-97391600	Weak transcription	Brain Angular Gyrus	brain
26	chr10:97381200-97403400	Strong transcription	H9 Derived Neuron Cultured Cells	ES cell derived
27	chr10:97381400-97393000	Weak transcription	Thymus	Thymus
28	chr10:97381600-97403000	Strong transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
29	chr10:97383000-97411200	Strong transcription	Placenta	Placenta
30	chr10:97383200-97403000	Strong transcription	Fetal Muscle Trunk	muscle
31	chr10:97383400-97398800	Strong transcription	Dnd41	blood
32	chr10:97383400-97400200	Strong transcription	Breast Myoepithelial Primary Cells	Breast
33	chr10:97383400-97403000	Strong transcription	Fetal Adrenal Gland	Adrenal Gland
34	chr10:97383800-97394800	Strong transcription	H9 Cell Line	embryonic stem cell
35	chr10:97383800-97395400	Strong transcription	HSMMtube	muscle
36	chr10:97383800-97397000	Strong transcription	Primary T regulatory cells fromperipheralblood	blood
37	chr10:97383800-97403000	Strong transcription	Foreskin Fibroblast Primary Cells skin01	Skin
38	chr10:97383800-97403000	Strong transcription	Fetal Brain Female	brain
39	chr10:97383800-97403200	Strong transcription	Cortex derived primary cultured neurospheres	brain
40	chr10:97383800-97403200	Strong transcription	GM12878-XiMat	blood
41	chr10:97383800-97409400	Strong transcription	iPS-20b Cell Line	embryonic stem cell
42	chr10:97383800-97410200	Strong transcription	Primary hematopoietic stem cells short term culture	blood
43	chr10:97384000-97392800	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
44	chr10:97384000-97397200	Strong transcription	iPS-18 Cell Line	embryonic stem cell
45	chr10:97384000-97397400	Strong transcription	Adipose Nuclei	Adipose
46	chr10:97384000-97402800	Strong transcription	HSMM	muscle
47	chr10:97384000-97403000	Strong transcription	Primary T helper cells PMA-I stimulated	--
48	chr10:97384000-97403200	Strong transcription	Primary T cells fromperipheralblood	blood
49	chr10:97384000-97403200	Strong transcription	Liver	Liver
50	chr10:97384200-97397000	Strong transcription	Primary T cells effector/memory enriched fromperipheralblood	blood

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