Variant report

Variant	rs17107977
Chromosome Location	chr10:94669796-94669797
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 43 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:33)

rs_ID	r²[population]
rs10509648	0.82[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs17093820	0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs17107949	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];0.86[CHD][hapmap];1.00[JPT][hapmap];1.00[LWK][hapmap];1.00[MEX][hapmap];1.00[MKK][hapmap];0.96[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs17107967	0.84[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs17108019	0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs1806690	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.92[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs1986356	1.00[EUR][1000 genomes]
rs3740379	1.00[CEU][hapmap];1.00[CHB][hapmap];0.86[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.93[LWK][hapmap];1.00[MEX][hapmap];1.00[MKK][hapmap];1.00[EUR][1000 genomes]
rs4933744	0.82[LWK][hapmap];1.00[YRI][hapmap]
rs55929600	1.00[EUR][1000 genomes]
rs57283335	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs57988954	0.86[AMR][1000 genomes];1.00[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs58753829	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs60626109	0.84[AFR][1000 genomes];0.86[AMR][1000 genomes];1.00[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs61426198	1.00[EUR][1000 genomes]
rs6583848	0.96[ASN][1000 genomes]
rs6583849	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs7069896	1.00[CEU][hapmap];1.00[CHB][hapmap];0.85[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];1.00[MKK][hapmap];0.82[YRI][hapmap];1.00[EUR][1000 genomes]
rs7073161	0.90[CHB][hapmap]
rs74149153	0.92[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs74149155	1.00[EUR][1000 genomes]
rs74149158	1.00[EUR][1000 genomes]
rs74149160	0.96[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs74149162	1.00[EUR][1000 genomes]
rs74149166	1.00[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs74149170	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs74149171	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs74149175	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs74149183	0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs74149184	0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs74149185	0.83[AFR][1000 genomes]
rs74149188	0.86[AMR][1000 genomes];1.00[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs74149191	0.86[AMR][1000 genomes];1.00[EUR][1000 genomes];0.84[ASN][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	nsv1041805	chr10:94624759-94699623	Weak transcription Strong transcription ZNF genes & repeats Enhancers Flanking Active TSS Genic enhancers Active TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	4 gene(s)	inside rSNPs	diseases
2	nsv895898	chr10:94628274-94810665	Weak transcription Enhancers Strong transcription ZNF genes & repeats Flanking Active TSS Genic enhancers Active TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	7 gene(s)	inside rSNPs	diseases
3	nsv1039122	chr10:94636267-94693706	Enhancers Weak transcription Strong transcription ZNF genes & repeats Flanking Active TSS Genic enhancers Active TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	4 gene(s)	inside rSNPs	diseases
4	nsv1039261	chr10:94659515-94706633	Weak transcription ZNF genes & repeats Enhancers Strong transcription Genic enhancers Flanking Active TSS Active TSS	TF binding region Chromatin interactive region lncRNA miRNA target site	2 gene(s)	inside rSNPs	diseases
5	esv1847300	chr10:94660133-94670849	Weak transcription Enhancers Strong transcription Flanking Active TSS ZNF genes & repeats Genic enhancers	TF binding region Chromatin interactive region lncRNA miRNA target site	1 gene(s)	inside rSNPs	diseases
6	nsv515937	chr10:94660133-94725508	Strong transcription Weak transcription Enhancers ZNF genes & repeats Flanking Active TSS Active TSS Genic enhancers	TF binding region Chromatin interactive region lncRNA miRNA target site	2 gene(s)	inside rSNPs	diseases
7	nsv518124	chr10:94660133-94778283	Weak transcription Enhancers Strong transcription Flanking Active TSS ZNF genes & repeats Active TSS Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	3 gene(s)	inside rSNPs	diseases
8	nsv522103	chr10:94660133-94810665	ZNF genes & repeats Weak transcription Enhancers Strong transcription Flanking Active TSS Active TSS Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	5 gene(s)	inside rSNPs	diseases
9	nsv467434	chr10:94668524-94725508	Enhancers Strong transcription Weak transcription ZNF genes & repeats Active TSS Genic enhancers Flanking Active TSS	TF binding region Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
10	nsv551940	chr10:94668524-94725508	Strong transcription Weak transcription Enhancers ZNF genes & repeats Flanking Active TSS Active TSS Genic enhancers	TF binding region Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:73 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr10:94652400-94672600	Weak transcription	Rectal Mucosa Donor 29	rectum
2	chr10:94652400-94674200	Weak transcription	Psoas Muscle	Psoas
3	chr10:94652400-94681000	Weak transcription	Fetal Stomach	stomach
4	chr10:94652400-94717400	Weak transcription	Esophagus	oesophagus
5	chr10:94652600-94680000	Weak transcription	Breast Myoepithelial Primary Cells	Breast
6	chr10:94652600-94680000	Weak transcription	Duodenum Mucosa	Duodenum
7	chr10:94652600-94680200	Weak transcription	Brain Anterior Caudate	brain
8	chr10:94652600-94688800	Weak transcription	Placenta	Placenta
9	chr10:94652600-94712400	Weak transcription	Brain Angular Gyrus	brain
10	chr10:94652600-94718000	Weak transcription	Ovary	ovary
11	chr10:94652600-94742400	Weak transcription	HSMMtube	muscle
12	chr10:94652800-94671200	Weak transcription	Fetal Heart	heart
13	chr10:94652800-94706600	Weak transcription	Rectal Mucosa Donor 31	rectum
14	chr10:94653000-94669800	Weak transcription	Hela-S3	cervix
15	chr10:94653200-94725200	Weak transcription	Fetal Lung	lung
16	chr10:94653400-94730200	Weak transcription	Fetal Brain Male	brain
17	chr10:94654600-94680200	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
18	chr10:94654600-94714600	Weak transcription	Brain Inferior Temporal Lobe	brain
19	chr10:94655000-94673200	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
20	chr10:94655000-94680200	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
21	chr10:94655200-94680200	Weak transcription	Cortex derived primary cultured neurospheres	brain
22	chr10:94655200-94689200	Weak transcription	Brain Germinal Matrix	brain
23	chr10:94655400-94672800	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
24	chr10:94655600-94688800	Weak transcription	Fetal Thymus	thymus
25	chr10:94656400-94680600	Weak transcription	Fetal Kidney	kidney
26	chr10:94656800-94674000	Strong transcription	Monocytes-CD14+_RO01746	blood
27	chr10:94657200-94680200	Weak transcription	Adipose Nuclei	Adipose
28	chr10:94657400-94673800	Weak transcription	Skeletal Muscle Male	skeletal muscle
29	chr10:94657800-94674200	Weak transcription	Skeletal Muscle Female	skeletal muscle
30	chr10:94657800-94680200	Weak transcription	Fetal Muscle Trunk	muscle
31	chr10:94658000-94688600	Weak transcription	Stomach Smooth Muscle	stomach
32	chr10:94658000-94688800	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
33	chr10:94658000-94732400	Weak transcription	Sigmoid Colon	Sigmoid Colon
34	chr10:94658000-94750000	Weak transcription	Aorta	Aorta
35	chr10:94658200-94682800	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
36	chr10:94658600-94725800	Weak transcription	Lung	lung
37	chr10:94661800-94672400	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
38	chr10:94661800-94675800	Weak transcription	Thymus	Thymus
39	chr10:94661800-94688800	Weak transcription	Primary T cells fromperipheralblood	blood
40	chr10:94662400-94680000	Weak transcription	Fetal Brain Female	brain
41	chr10:94662400-94688400	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
42	chr10:94662600-94680200	Weak transcription	A549	lung
43	chr10:94662600-94689400	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
44	chr10:94662600-94748400	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
45	chr10:94662800-94671800	Weak transcription	Primary T killer memory cells from peripheral blood	blood
46	chr10:94662800-94688200	Weak transcription	Primary T helper cells PMA-I stimulated	--
47	chr10:94663200-94674400	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
48	chr10:94664200-94680600	Weak transcription	Liver	Liver
49	chr10:94664400-94675800	Weak transcription	Primary hematopoietic stem cells short term culture	blood
50	chr10:94664400-94693800	Weak transcription	HepG2	liver

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