Variant report

Variant	rs6682627
Chromosome Location	chr1:214601710-214601711
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 28 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:28)

rs_ID	r²[population]
rs10494980	1.00[CEU][hapmap];1.00[MEX][hapmap]
rs10864102	0.85[CEU][hapmap]
rs10864103	1.00[CEU][hapmap];1.00[MEX][hapmap]
rs12096551	0.83[JPT][hapmap]
rs17023030	1.00[CEU][hapmap]
rs4233302	1.00[CEU][hapmap];1.00[MEX][hapmap]
rs4233304	1.00[CEU][hapmap];1.00[MEX][hapmap]
rs4233306	1.00[CEU][hapmap]
rs4269744	1.00[CEU][hapmap];0.92[MEX][hapmap]
rs4284238	1.00[CEU][hapmap];1.00[MEX][hapmap]
rs4474219	1.00[CEU][hapmap];1.00[MEX][hapmap]
rs4571940	1.00[CEU][hapmap];1.00[MEX][hapmap];0.92[TSI][hapmap];0.85[EUR][1000 genomes]
rs4655259	1.00[CEU][hapmap];1.00[MEX][hapmap]
rs4655350	0.86[CEU][hapmap]
rs4655351	1.00[CEU][hapmap];0.92[MEX][hapmap]
rs4655352	0.85[CEU][hapmap]
rs6540830	1.00[CEU][hapmap];0.87[EUR][1000 genomes]
rs6540838	1.00[CEU][hapmap]
rs6671350	0.80[CEU][hapmap]
rs6676807	1.00[CEU][hapmap];1.00[MEX][hapmap]
rs6677050	0.85[MEX][hapmap];0.82[TSI][hapmap]
rs6682847	1.00[CEU][hapmap]
rs6684018	0.88[CEU][hapmap]
rs6685434	1.00[CEU][hapmap];1.00[MEX][hapmap]
rs6689084	1.00[CEU][hapmap]
rs7525020	1.00[CEU][hapmap];0.92[MEX][hapmap]
rs7531610	1.00[CEU][hapmap];1.00[MEX][hapmap]
rs7540188	0.94[CEU][hapmap]

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs6682627	PTPN14	cis	parietal	SCAN

Chromatin state (count:86 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr1:214572600-214612600	Weak transcription	Fetal Intestine Small	intestine
2	chr1:214576800-214612200	Weak transcription	Fetal Intestine Large	intestine
3	chr1:214584200-214603000	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
4	chr1:214591400-214612800	Weak transcription	Pancreas	Pancrea
5	chr1:214592000-214602200	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
6	chr1:214593200-214613000	Weak transcription	Fetal Muscle Leg	muscle
7	chr1:214593400-214602400	Enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin
8	chr1:214593400-214612800	Weak transcription	Ovary	ovary
9	chr1:214594000-214618000	Weak transcription	Stomach Smooth Muscle	stomach
10	chr1:214595400-214602400	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
11	chr1:214595400-214612800	Weak transcription	Aorta	Aorta
12	chr1:214596000-214614000	Weak transcription	Right Ventricle	heart
13	chr1:214596600-214602400	Enhancers	HMEC	breast
14	chr1:214596600-214603400	Enhancers	NHEK	skin
15	chr1:214596800-214612800	Weak transcription	Left Ventricle	heart
16	chr1:214597200-214604200	Weak transcription	Placenta Amnion	Placenta Amnion
17	chr1:214598200-214603400	Enhancers	HSMM	muscle
18	chr1:214598200-214603400	Enhancers	Osteobl	bone
19	chr1:214598400-214602600	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Female	--
20	chr1:214598600-214603800	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
21	chr1:214598800-214602600	Enhancers	Primary hematopoietic stem cells	blood
22	chr1:214599000-214602800	Enhancers	HUES64 Cell Line	embryonic stem cell
23	chr1:214599000-214603600	Enhancers	NHLF	lung
24	chr1:214599400-214602400	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
25	chr1:214599400-214604000	Weak transcription	Fetal Brain Male	brain
26	chr1:214599600-214603000	Enhancers	Primary T killer memory cells from peripheral blood	blood
27	chr1:214599800-214602400	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
28	chr1:214600200-214602400	Enhancers	Thymus	Thymus
29	chr1:214600200-214612800	Weak transcription	Cortex derived primary cultured neurospheres	brain
30	chr1:214600800-214601800	Flanking Active TSS	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
31	chr1:214600800-214601800	Enhancers	HUES6 Cell Line	embryonic stem cell
32	chr1:214600800-214601800	Enhancers	iPS-20b Cell Line	embryonic stem cell
33	chr1:214600800-214601800	Enhancers	Primary B cells from peripheral blood	blood
34	chr1:214600800-214602000	Enhancers	Primary neutrophils fromperipheralblood	blood
35	chr1:214600800-214602000	Enhancers	HSMMtube	muscle
36	chr1:214600800-214602200	Enhancers	Primary monocytes fromperipheralblood	blood
37	chr1:214600800-214602200	Enhancers	Fetal Thymus	thymus
38	chr1:214600800-214602400	Flanking Active TSS	Dnd41	blood
39	chr1:214600800-214602800	Enhancers	Primary T helper memory cells from peripheral blood 2	blood
40	chr1:214600800-214603200	Enhancers	Primary T helper cells PMA-I stimulated	--
41	chr1:214600800-214604000	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
42	chr1:214601000-214601800	Flanking Active TSS	H9 Derived Neuron Cultured Cells	ES cell derived
43	chr1:214601000-214601800	Enhancers	HUES48 Cell Line	embryonic stem cell
44	chr1:214601000-214601800	Enhancers	iPS-18 Cell Line	embryonic stem cell
45	chr1:214601000-214601800	Enhancers	Primary B cells from cord blood	blood
46	chr1:214601000-214601800	Flanking Active TSS	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
47	chr1:214601000-214601800	Flanking Active TSS	Muscle Satellite Cultured Cells	--
48	chr1:214601000-214601800	Enhancers	HepG2	liver
49	chr1:214601000-214601800	Flanking Active TSS	Monocytes-CD14+_RO01746	blood
50	chr1:214601000-214602200	Enhancers	Primary T cells fromperipheralblood	blood

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