Variant report

Variant	rs6677050
Chromosome Location	chr1:214602249-214602250
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 16 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:16)

rs_ID	r²[population]
rs10864103	0.86[MEX][hapmap]
rs17022944	0.84[LWK][hapmap]
rs4233300	0.89[CEU][hapmap];0.86[CHB][hapmap]
rs4233302	0.86[MEX][hapmap]
rs4233304	0.86[MEX][hapmap]
rs4253890	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];0.89[JPT][hapmap];0.84[LWK][hapmap];0.94[MEX][hapmap];0.97[TSI][hapmap];0.81[YRI][hapmap];0.93[AMR][1000 genomes];0.97[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs4284238	0.86[MEX][hapmap]
rs4474219	0.86[MEX][hapmap]
rs4571940	0.86[MEX][hapmap]
rs4655259	0.86[MEX][hapmap]
rs56309401	0.81[AMR][1000 genomes];0.84[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs6676807	0.86[MEX][hapmap]
rs6682627	0.85[MEX][hapmap];0.82[TSI][hapmap]
rs6685434	0.86[MEX][hapmap]
rs7531610	0.86[MEX][hapmap]
rs7540188	0.81[MEX][hapmap]

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs6677050	PTPN14	cis	parietal	SCAN

Chromatin state (count:73 , 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	chr1:214593200-214613000	Weak transcription	Fetal Muscle Leg	muscle
6	chr1:214593400-214602400	Enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin
7	chr1:214593400-214612800	Weak transcription	Ovary	ovary
8	chr1:214594000-214618000	Weak transcription	Stomach Smooth Muscle	stomach
9	chr1:214595400-214602400	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
10	chr1:214595400-214612800	Weak transcription	Aorta	Aorta
11	chr1:214596000-214614000	Weak transcription	Right Ventricle	heart
12	chr1:214596600-214602400	Enhancers	HMEC	breast
13	chr1:214596600-214603400	Enhancers	NHEK	skin
14	chr1:214596800-214612800	Weak transcription	Left Ventricle	heart
15	chr1:214597200-214604200	Weak transcription	Placenta Amnion	Placenta Amnion
16	chr1:214598200-214603400	Enhancers	HSMM	muscle
17	chr1:214598200-214603400	Enhancers	Osteobl	bone
18	chr1:214598400-214602600	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Female	--
19	chr1:214598600-214603800	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
20	chr1:214598800-214602600	Enhancers	Primary hematopoietic stem cells	blood
21	chr1:214599000-214602800	Enhancers	HUES64 Cell Line	embryonic stem cell
22	chr1:214599000-214603600	Enhancers	NHLF	lung
23	chr1:214599400-214602400	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
24	chr1:214599400-214604000	Weak transcription	Fetal Brain Male	brain
25	chr1:214599600-214603000	Enhancers	Primary T killer memory cells from peripheral blood	blood
26	chr1:214599800-214602400	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
27	chr1:214600200-214602400	Enhancers	Thymus	Thymus
28	chr1:214600200-214612800	Weak transcription	Cortex derived primary cultured neurospheres	brain
29	chr1:214600800-214602400	Flanking Active TSS	Dnd41	blood
30	chr1:214600800-214602800	Enhancers	Primary T helper memory cells from peripheral blood 2	blood
31	chr1:214600800-214603200	Enhancers	Primary T helper cells PMA-I stimulated	--
32	chr1:214600800-214604000	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
33	chr1:214601000-214602400	Enhancers	Primary T helper 17 cells PMA-I stimulated	--
34	chr1:214601000-214602600	Enhancers	Primary T helper memory cells from peripheral blood 1	blood
35	chr1:214601000-214602600	Enhancers	Primary T helper cells fromperipheralblood	blood
36	chr1:214601000-214602800	Enhancers	Primary T helper naive cells from peripheral blood	blood
37	chr1:214601000-214602800	Enhancers	Primary T regulatory cells fromperipheralblood	blood
38	chr1:214601000-214602800	Enhancers	Primary T killer naive cells fromperipheralblood	blood
39	chr1:214601000-214603000	Enhancers	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
40	chr1:214601200-214602400	Enhancers	Primary T cells effector/memory enriched fromperipheralblood	blood
41	chr1:214601200-214602400	Enhancers	Foreskin Melanocyte Primary Cells skin01	Skin
42	chr1:214601200-214603000	Enhancers	Primary T helper naive cells fromperipheralblood	blood
43	chr1:214601400-214603400	Enhancers	NH-A	brain
44	chr1:214601400-214612800	Weak transcription	Adipose Nuclei	Adipose
45	chr1:214601600-214603000	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Male	--
46	chr1:214601600-214603400	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
47	chr1:214601600-214603400	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
48	chr1:214601600-214603400	Weak transcription	H9 Cell Line	embryonic stem cell
49	chr1:214601600-214603400	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
50	chr1:214601600-214603400	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow

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