Variant report

Variant	rs6586101
Chromosome Location	chr10:89492444-89492445
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr10:89417900..89422022-chr10:89491019..89499459,9	MCF-7	breast:

Variant related genes	Relation type
ENSG00000198682	Chromatin interaction
ENSG00000196566	Chromatin interaction

Extended variants
information (count: 45 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:45)

rs_ID	r²[population]
rs10788564	0.98[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs10788566	0.91[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs10887745	0.98[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs10887746	0.98[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs10887748	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs10887749	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs10887750	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs10887751	0.89[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs11202525	0.81[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs11202526	0.91[AFR][1000 genomes];0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs11202527	0.85[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs11202530	0.85[AFR][1000 genomes];0.98[AMR][1000 genomes];0.97[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs11596283	0.97[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs12414519	0.91[AFR][1000 genomes];0.99[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs12764439	0.82[AFR][1000 genomes]
rs1853168	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs2302406	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs2302407	0.98[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs34783121	0.86[EUR][1000 genomes]
rs3781187	0.98[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs3781188	0.98[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs3781190	0.98[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs3815417	0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs4933459	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs4933461	1.00[AFR][1000 genomes];0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4934363	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs4934364	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs4934365	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs4934366	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs4934367	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs7068030	0.98[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs7073722	0.93[AFR][1000 genomes];0.98[AMR][1000 genomes];0.97[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs7073724	0.93[AFR][1000 genomes];0.99[AMR][1000 genomes];0.96[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs7079187	0.98[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs7080206	0.98[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs7081055	0.98[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs7088594	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs7097745	0.98[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs7896505	0.98[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs7898500	0.98[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs7907791	0.95[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs7908313	0.93[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs7919607	0.95[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs7920554	1.00[AFR][1000 genomes];0.99[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7921017	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs6586101	PAPSS2	cis	Muscle Skeletal	GTEx

Chromatin state (count:55 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr10:89460400-89512000	Weak transcription	HSMM	muscle
2	chr10:89462200-89494800	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
3	chr10:89463000-89494600	Weak transcription	Fetal Muscle Leg	muscle
4	chr10:89463000-89541400	Weak transcription	Rectal Smooth Muscle	rectum
5	chr10:89466200-89494600	Weak transcription	A549	lung
6	chr10:89466800-89494600	Weak transcription	Hela-S3	cervix
7	chr10:89468600-89494000	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
8	chr10:89470600-89493800	Weak transcription	iPS-15b Cell Line	embryonic stem cell
9	chr10:89472400-89503000	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
10	chr10:89473000-89577200	Weak transcription	Gastric	stomach
11	chr10:89473600-89494000	Weak transcription	ES-I3 Cell Line	embryonic stem cell
12	chr10:89473800-89493600	Weak transcription	H9 Cell Line	embryonic stem cell
13	chr10:89476000-89494600	Weak transcription	NHDF-Ad	bronchial
14	chr10:89476200-89494000	Weak transcription	Fetal Stomach	stomach
15	chr10:89476200-89494600	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
16	chr10:89476200-89542400	Weak transcription	Pancreas	Pancrea
17	chr10:89476400-89494000	Weak transcription	HUES6 Cell Line	embryonic stem cell
18	chr10:89476400-89494800	Weak transcription	Spleen	Spleen
19	chr10:89476400-89504800	Weak transcription	Left Ventricle	heart
20	chr10:89477200-89494800	Weak transcription	Breast Myoepithelial Primary Cells	Breast
21	chr10:89477400-89500000	Weak transcription	Pancreatic Islets	Pancreatic Islet
22	chr10:89478000-89494800	Weak transcription	Ovary	ovary
23	chr10:89483200-89503200	Weak transcription	Sigmoid Colon	Sigmoid Colon
24	chr10:89483600-89494600	Weak transcription	Duodenum Mucosa	Duodenum
25	chr10:89483600-89494800	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
26	chr10:89484000-89494000	Strong transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
27	chr10:89484600-89494200	Strong transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
28	chr10:89484600-89494200	Strong transcription	Osteobl	bone
29	chr10:89486600-89494000	Strong transcription	Liver	Liver
30	chr10:89487200-89494000	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
31	chr10:89487400-89503200	Weak transcription	Colonic Mucosa	Colon
32	chr10:89487600-89494800	Weak transcription	Placenta	Placenta
33	chr10:89487800-89494600	Weak transcription	NH-A	brain
34	chr10:89488000-89494600	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
35	chr10:89488000-89494600	Weak transcription	Fetal Lung	lung
36	chr10:89488000-89494800	Weak transcription	Rectal Mucosa Donor 29	rectum
37	chr10:89488000-89501600	Weak transcription	Rectal Mucosa Donor 31	rectum
38	chr10:89488200-89493800	Weak transcription	Adipose Nuclei	Adipose
39	chr10:89488600-89496600	Weak transcription	Lung	lung
40	chr10:89489400-89494800	Weak transcription	Muscle Satellite Cultured Cells	--
41	chr10:89490000-89492600	Weak transcription	HUVEC	blood vessel
42	chr10:89490000-89499800	Weak transcription	Fetal Intestine Large	intestine
43	chr10:89490000-89503000	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
44	chr10:89490200-89494200	Weak transcription	iPS-20b Cell Line	embryonic stem cell
45	chr10:89490200-89494600	Weak transcription	HUES48 Cell Line	embryonic stem cell
46	chr10:89490200-89494800	Weak transcription	Fetal Intestine Small	intestine
47	chr10:89490400-89492800	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
48	chr10:89490400-89494000	Weak transcription	HUES64 Cell Line	embryonic stem cell
49	chr10:89490600-89493800	Weak transcription	iPS-18 Cell Line	embryonic stem cell
50	chr10:89490800-89511400	Weak transcription	Primary B cells from cord blood	blood

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