Variant report

Variant	rs10912870
Chromosome Location	chr1:174988016-174988017
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Transcrition factor	Chromosome Location	Cell Line	Cell type	Cell Stage	Matched TF binding sites
1	POLR2A	chr1:174987928-174988111	MCF10A-Er-Src	breast:	n/a	n/a

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr1:174966455..174979047-chr1:174985921..174994239,29	MCF-7	breast:

Variant related genes	Relation type
MRPS14	TF binding region
ENSG00000116161	Chromatin interaction

Extended variants
information (count: 30 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:29)

rs_ID	r²[population]
rs1002125	0.85[ASN][1000 genomes]
rs10489333	0.95[CHB][hapmap];0.89[JPT][hapmap];0.85[ASN][1000 genomes]
rs10912849	0.89[CHB][hapmap];0.93[CHD][hapmap];0.89[JPT][hapmap]
rs10912850	0.89[CHB][hapmap]
rs12065854	0.89[CHB][hapmap];0.93[CHD][hapmap]
rs12074821	0.81[ASN][1000 genomes]
rs12087196	0.85[ASN][1000 genomes]
rs12088588	0.88[ASN][1000 genomes]
rs12562194	0.92[ASN][1000 genomes]
rs12565944	0.92[ASN][1000 genomes]
rs16847563	0.89[CHB][hapmap];0.97[CHD][hapmap];0.89[JPT][hapmap]
rs16847633	0.84[CHB][hapmap];1.00[CHD][hapmap];0.94[JPT][hapmap];0.85[ASN][1000 genomes]
rs16847706	0.89[CHB][hapmap];0.97[CHD][hapmap];1.00[JPT][hapmap];0.92[ASN][1000 genomes]
rs16847812	0.84[CHB][hapmap]
rs16865298	0.82[ASN][1000 genomes]
rs2285209	0.85[ASN][1000 genomes]
rs28660133	0.84[ASN][1000 genomes]
rs41266068	0.91[ASN][1000 genomes]
rs41266072	0.84[ASN][1000 genomes]
rs61828148	0.82[ASN][1000 genomes]
rs61828149	0.82[ASN][1000 genomes]
rs61828151	0.84[ASN][1000 genomes]
rs61828152	0.85[ASN][1000 genomes]
rs61828156	0.92[ASN][1000 genomes]
rs61828157	0.84[ASN][1000 genomes]
rs6658861	0.80[CHD][hapmap]
rs6662806	0.82[ASN][1000 genomes]
rs6667611	0.84[CHB][hapmap]
rs6676700	0.84[CHB][hapmap]

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

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv947512	chr1:174984818-175000909	Flanking Active TSS Enhancers Weak transcription Strong transcription Active TSS Transcr. at gene 5' and 3' Genic enhancers Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region	11 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs10912870	PRDX6	cis	cerebellum	SCAN

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr1:174970000-174991800	Weak transcription	Stomach Mucosa	stomach
2	chr1:174971000-174991600	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
3	chr1:174973000-174990600	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
4	chr1:174973200-174988200	Strong transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
5	chr1:174973600-174988200	Strong transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
6	chr1:174973600-174990400	Strong transcription	Primary T cells from cord blood	blood
7	chr1:174973800-174988200	Strong transcription	Primary hematopoietic stem cells	blood
8	chr1:174973800-174988400	Strong transcription	Fetal Thymus	thymus
9	chr1:174973800-174988800	Strong transcription	Primary B cells from peripheral blood	blood
10	chr1:174973800-174988800	Strong transcription	Fetal Adrenal Gland	Adrenal Gland
11	chr1:174973800-174989800	Strong transcription	Primary T helper cells fromperipheralblood	blood
12	chr1:174974000-174988200	Strong transcription	Foreskin Melanocyte Primary Cells skin03	Skin
13	chr1:174974000-174988400	Strong transcription	Duodenum Mucosa	Duodenum
14	chr1:174974200-174988200	Strong transcription	Thymus	Thymus
15	chr1:174974200-174988400	Strong transcription	Primary Natural Killer cells fromperipheralblood	blood
16	chr1:174974200-174988400	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
17	chr1:174974200-174988800	Strong transcription	H9 Derived Neuron Cultured Cells	ES cell derived
18	chr1:174974200-174990200	Strong transcription	Primary T regulatory cells fromperipheralblood	blood
19	chr1:174974400-174988400	Strong transcription	Rectal Mucosa Donor 29	rectum
20	chr1:174974800-174989400	Strong transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
21	chr1:174975200-174988200	Strong transcription	Primary T helper 17 cells PMA-I stimulated	--
22	chr1:174977400-174991800	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
23	chr1:174977600-174988600	Strong transcription	Dnd41	blood
24	chr1:174977800-174991800	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
25	chr1:174978000-174988200	Strong transcription	Cortex derived primary cultured neurospheres	brain
26	chr1:174978200-174991400	Weak transcription	ES-I3 Cell Line	embryonic stem cell
27	chr1:174983000-174991000	Weak transcription	Pancreatic Islets	Pancreatic Islet
28	chr1:174983000-174991600	Weak transcription	iPS-15b Cell Line	embryonic stem cell
29	chr1:174983600-174991400	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
30	chr1:174985600-174989400	Strong transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
31	chr1:174986000-174988400	Strong transcription	NHDF-Ad	bronchial
32	chr1:174986200-174991400	Weak transcription	Psoas Muscle	Psoas
33	chr1:174987000-174990200	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
34	chr1:174987000-174991600	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
35	chr1:174987000-174991600	Weak transcription	H9 Cell Line	embryonic stem cell
36	chr1:174987000-174991600	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
37	chr1:174987000-174991600	Weak transcription	HSMM	muscle
38	chr1:174987000-174991800	Weak transcription	Esophagus	oesophagus
39	chr1:174987200-174990400	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
40	chr1:174987200-174991400	Weak transcription	Brain Substantia Nigra	brain
41	chr1:174987200-174991600	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
42	chr1:174987200-174991800	Weak transcription	Aorta	Aorta
43	chr1:174987200-174991800	Weak transcription	Ovary	ovary
44	chr1:174987200-174991800	Weak transcription	Pancreas	Pancrea
45	chr1:174987200-174992000	Weak transcription	Small Intestine	intestine
46	chr1:174987400-174991600	Weak transcription	Fetal Intestine Small	intestine
47	chr1:174987600-174990000	Weak transcription	NHEK	skin
48	chr1:174987600-174990200	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
49	chr1:174987600-174990800	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
50	chr1:174987600-174991000	Weak transcription	Primary T killer memory cells from peripheral blood	blood

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