Variant report

Variant	rs62010173
Chromosome Location	chr15:83720896-83720897
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr15:83718422..83721272-chr15:83727802..83729791,2	MCF-7	breast:
2	chr15:83714522..83717399-chr15:83720662..83723251,3	MCF-7	breast:
3	chr15:83683189..83685982-chr15:83719476..83721962,2	MCF-7	breast:
4	chr15:83719346..83723182-chr15:83733167..83737107,5	MCF-7	breast:
5	chr15:83715424..83718064-chr15:83719632..83721624,3	K562	blood:
6	chr15:83715424..83717754-chr15:83719632..83721290,2	K562	blood:
7	chr15:83680450..83681968-chr15:83719414..83722223,2	K562	blood:

Variant related genes	Relation type
ENSG00000263643	Chromatin interaction
ENSG00000249214	Chromatin interaction
ENSG00000064726	Chromatin interaction
ENSG00000260608	Chromatin interaction

Extended variants
information (count: 140 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:138)

rs_ID	r²[population]
rs1010820	0.84[EUR][1000 genomes]
rs10520576	0.84[EUR][1000 genomes]
rs1075619	0.85[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1112404	0.85[EUR][1000 genomes]
rs11259965	0.84[EUR][1000 genomes]
rs11259967	0.81[EUR][1000 genomes]
rs11259968	0.85[EUR][1000 genomes]
rs11259970	0.85[EUR][1000 genomes]
rs11852287	0.81[EUR][1000 genomes]
rs11852408	0.85[EUR][1000 genomes]
rs11852446	0.85[EUR][1000 genomes]
rs11852496	0.82[EUR][1000 genomes]
rs11853498	0.85[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11854888	0.84[EUR][1000 genomes]
rs11855639	0.84[EUR][1000 genomes]
rs11855722	1.00[ASN][1000 genomes]
rs11856164	0.85[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11856806	0.85[EUR][1000 genomes]
rs11857428	0.86[EUR][1000 genomes]
rs11857641	0.83[EUR][1000 genomes]
rs11858162	0.83[AFR][1000 genomes];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11858377	0.86[EUR][1000 genomes]
rs11858468	0.92[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12437558	0.95[AFR][1000 genomes];0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12437858	0.95[AFR][1000 genomes];0.89[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs12437901	0.93[AFR][1000 genomes];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12438398	0.84[EUR][1000 genomes]
rs12438526	1.00[ASN][1000 genomes]
rs12438575	0.82[AFR][1000 genomes];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12438708	1.00[ASN][1000 genomes]
rs12439122	1.00[ASN][1000 genomes]
rs12439903	0.85[EUR][1000 genomes]
rs12440265	0.82[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12440386	0.86[EUR][1000 genomes]
rs12440562	0.84[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12441006	0.82[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12441409	0.85[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12441575	0.93[AFR][1000 genomes];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12441847	0.85[EUR][1000 genomes]
rs12441907	1.00[ASN][1000 genomes]
rs12442894	0.82[EUR][1000 genomes]
rs12443109	0.85[EUR][1000 genomes]
rs12443424	0.85[EUR][1000 genomes]
rs12591855	0.85[EUR][1000 genomes]
rs12593532	0.84[EUR][1000 genomes]
rs12593638	0.82[EUR][1000 genomes]
rs12595330	0.85[EUR][1000 genomes]
rs17361375	0.89[AFR][1000 genomes];0.90[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17507693	0.85[EUR][1000 genomes]
rs17507763	0.85[EUR][1000 genomes]
rs17508610	0.84[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17509233	0.85[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17567151	0.84[EUR][1000 genomes]
rs17567869	0.82[EUR][1000 genomes]
rs17568298	0.85[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17568459	0.85[EUR][1000 genomes]
rs1877024	1.00[ASN][1000 genomes]
rs1901544	0.81[EUR][1000 genomes]
rs2034618	0.85[EUR][1000 genomes]
rs4300612	1.00[ASN][1000 genomes]
rs4408505	0.82[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4423388	0.82[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4480763	1.00[ASN][1000 genomes]
rs4547301	1.00[ASN][1000 genomes]
rs4563011	0.83[EUR][1000 genomes]
rs4572349	0.85[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs55683536	0.85[EUR][1000 genomes]
rs55691648	1.00[ASN][1000 genomes]
rs55756182	0.82[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs55878453	0.82[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs55893521	1.00[ASN][1000 genomes]
rs55905779	1.00[ASN][1000 genomes]
rs55932429	1.00[ASN][1000 genomes]
rs55933526	1.00[ASN][1000 genomes]
rs56045305	0.84[EUR][1000 genomes]
rs56052029	0.84[EUR][1000 genomes]
rs56352317	0.84[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs57219675	0.85[EUR][1000 genomes]
rs57729044	0.85[EUR][1000 genomes]
rs58006707	0.85[EUR][1000 genomes]
rs58281154	0.85[EUR][1000 genomes]
rs58396076	0.89[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs59896565	0.84[EUR][1000 genomes]
rs60344060	0.85[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs60819629	0.93[AFR][1000 genomes];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs61267530	0.82[EUR][1000 genomes]
rs62010162	0.88[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62010164	0.87[AFR][1000 genomes];0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62010165	0.90[AFR][1000 genomes];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62010166	0.90[AFR][1000 genomes];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62010170	0.93[AFR][1000 genomes];0.97[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62010172	0.97[AFR][1000 genomes];0.90[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62010174	0.85[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62010175	1.00[AFR][1000 genomes];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62010177	0.86[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62010208	1.00[ASN][1000 genomes]
rs62010212	0.85[EUR][1000 genomes]
rs62010214	0.83[EUR][1000 genomes]
rs62010215	0.85[EUR][1000 genomes]
rs62010220	0.85[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62010247	1.00[ASN][1000 genomes]
rs62010248	0.85[EUR][1000 genomes]
rs62010252	0.85[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62010254	0.85[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62010255	0.85[EUR][1000 genomes]
rs62010258	0.85[EUR][1000 genomes]
rs62011742	0.86[EUR][1000 genomes]
rs62011744	0.89[EUR][1000 genomes]
rs62011869	0.86[EUR][1000 genomes]
rs62025914	0.82[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62025915	0.82[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62025919	1.00[ASN][1000 genomes]
rs62025921	1.00[ASN][1000 genomes]
rs6603042	1.00[ASN][1000 genomes]
rs66619192	0.93[AFR][1000 genomes];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs66757932	0.89[AFR][1000 genomes];0.93[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs67022650	0.87[EUR][1000 genomes]
rs67933024	0.81[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7164083	0.84[EUR][1000 genomes]
rs7165114	0.85[EUR][1000 genomes]
rs7165978	0.84[EUR][1000 genomes]
rs7166078	1.00[ASN][1000 genomes]
rs7172590	0.81[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7179675	1.00[ASN][1000 genomes]
rs7180692	1.00[ASN][1000 genomes]
rs7183171	1.00[ASN][1000 genomes]
rs72755992	0.85[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7495630	0.85[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7495911	0.85[EUR][1000 genomes]
rs8027577	0.85[EUR][1000 genomes]
rs8031723	1.00[AFR][1000 genomes];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs8033380	1.00[ASN][1000 genomes]
rs8035852	0.90[AFR][1000 genomes]
rs8038486	0.84[EUR][1000 genomes]
rs8043224	0.86[EUR][1000 genomes]
rs965263	0.85[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs965264	0.84[EUR][1000 genomes]
rs9707895	0.83[EUR][1000 genomes];1.00[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	nsv1040336	chr15:83578947-83768335	Weak transcription Enhancers Strong transcription Active TSS Flanking Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Genic enhancers ZNF genes & repeats Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	38 gene(s)	inside rSNPs	diseases
2	nsv482308	chr15:83584918-83747362	Weak transcription Strong transcription Active TSS Enhancers Flanking Active TSS Bivalent Enhancer Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS ZNF genes & repeats Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	36 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:126 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:83681600-83732000	Weak transcription	Stomach Mucosa	stomach
2	chr15:83683000-83723000	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
3	chr15:83683400-83726600	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
4	chr15:83697800-83721000	Strong transcription	Fetal Intestine Large	intestine
5	chr15:83699000-83725800	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
6	chr15:83700400-83734400	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
7	chr15:83701600-83732800	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
8	chr15:83705000-83725800	Strong transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
9	chr15:83705000-83731000	Strong transcription	Monocytes-CD14+_RO01746	blood
10	chr15:83705600-83721400	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
11	chr15:83706000-83725400	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
12	chr15:83706800-83726600	Strong transcription	Primary Natural Killer cells fromperipheralblood	blood
13	chr15:83707000-83725400	Strong transcription	HUES64 Cell Line	embryonic stem cell
14	chr15:83707400-83725400	Strong transcription	HUES6 Cell Line	embryonic stem cell
15	chr15:83708000-83722000	Strong transcription	Primary hematopoietic stem cells short term culture	blood
16	chr15:83708000-83725400	Strong transcription	HUES48 Cell Line	embryonic stem cell
17	chr15:83708600-83726000	Strong transcription	Primary monocytes fromperipheralblood	blood
18	chr15:83708800-83726400	Strong transcription	Primary T cells fromperipheralblood	blood
19	chr15:83708800-83726600	Weak transcription	Pancreas	Pancrea
20	chr15:83709000-83726600	Weak transcription	Brain Inferior Temporal Lobe	brain
21	chr15:83709000-83726600	Weak transcription	Fetal Brain Male	brain
22	chr15:83709200-83724400	Weak transcription	Primary T killer memory cells from peripheral blood	blood
23	chr15:83709200-83727000	Strong transcription	H9 Derived Neuron Cultured Cells	ES cell derived
24	chr15:83709600-83730800	Weak transcription	Pancreatic Islets	Pancreatic Islet
25	chr15:83710400-83722800	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
26	chr15:83710600-83722000	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
27	chr15:83710600-83723800	Weak transcription	Primary T helper naive cells from peripheral blood	blood
28	chr15:83710600-83723800	Weak transcription	Brain Angular Gyrus	brain
29	chr15:83710600-83730200	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
30	chr15:83710600-83730200	Weak transcription	Esophagus	oesophagus
31	chr15:83710800-83725800	Weak transcription	ES-I3 Cell Line	embryonic stem cell
32	chr15:83711800-83724800	Strong transcription	Hela-S3	cervix
33	chr15:83711800-83725000	Strong transcription	iPS-20b Cell Line	embryonic stem cell
34	chr15:83712200-83725800	Weak transcription	Right Ventricle	heart
35	chr15:83712400-83722600	Weak transcription	Brain Germinal Matrix	brain
36	chr15:83712600-83722800	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
37	chr15:83713400-83725600	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
38	chr15:83713600-83726600	Weak transcription	Gastric	stomach
39	chr15:83714200-83730200	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
40	chr15:83714400-83726600	Strong transcription	Primary T helper cells fromperipheralblood	blood
41	chr15:83714800-83725800	Strong transcription	Breast Myoepithelial Primary Cells	Breast
42	chr15:83715200-83725400	Strong transcription	Liver	Liver
43	chr15:83715600-83725000	Strong transcription	Duodenum Mucosa	Duodenum
44	chr15:83716200-83725400	Strong transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
45	chr15:83716400-83721200	Strong transcription	Foreskin Melanocyte Primary Cells skin03	Skin
46	chr15:83716600-83721200	Strong transcription	Skeletal Muscle Female	skeletal muscle
47	chr15:83717000-83725600	Weak transcription	Fetal Heart	heart
48	chr15:83717000-83726400	Weak transcription	Small Intestine	intestine
49	chr15:83717000-83726800	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
50	chr15:83717200-83724400	Weak transcription	Placenta Amnion	Placenta Amnion

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links