Variant report

Variant	rs11757877
Chromosome Location	chr6:109681882-109681883
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr6:109675179..109679333-chr6:109679553..109683129,6	K562	blood:
2	chr6:109675670..109678253-chr6:109680723..109682896,2	MCF-7	breast:
3	chr6:109628997..109630625-chr6:109681004..109683799,2	K562	blood:
4	chr6:109680156..109682689-chr6:109691352..109692864,2	K562	blood:
5	chr6:109681277..109683084-chr6:109700704..109702275,2	K562	blood:

Variant related genes	Relation type
ENSG00000203799	Chromatin interaction
ENSG00000135535	Chromatin interaction

Extended variants
information (count: 25 )
Associated
traits (count: 3 )

rSNPs within LD-proxies of this variant (count:25)

rs_ID	r²[population]
rs11753645	0.84[CEU][hapmap];0.85[CHB][hapmap];0.80[JPT][hapmap];0.97[AFR][1000 genomes];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs12524502	0.90[CEU][hapmap];0.88[AMR][1000 genomes];0.96[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs12528566	0.83[AFR][1000 genomes];0.89[AMR][1000 genomes];0.93[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs12528712	0.84[CEU][hapmap];0.97[AMR][1000 genomes];0.96[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs13192476	0.81[AFR][1000 genomes];0.89[AMR][1000 genomes];0.95[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs13195517	0.84[CEU][hapmap];0.84[CHB][hapmap];0.86[AMR][1000 genomes];0.93[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs13199519	0.84[CHB][hapmap];0.89[AFR][1000 genomes];0.95[AMR][1000 genomes];0.97[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs13203252	0.83[CEU][hapmap];0.85[CHB][hapmap];0.88[AFR][1000 genomes];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs13220304	0.84[CEU][hapmap]
rs1322818	0.87[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs2275652	0.90[AFR][1000 genomes];0.95[AMR][1000 genomes];0.96[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs34131679	0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs34292461	0.87[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs34320275	0.88[AMR][1000 genomes];0.93[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs35452836	0.84[EUR][1000 genomes]
rs35969918	0.89[AMR][1000 genomes];0.93[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs3757238	0.88[AMR][1000 genomes];0.92[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs3799835	0.85[CEU][hapmap];0.85[CHB][hapmap];0.80[JPT][hapmap];0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs3799840	0.90[AFR][1000 genomes];0.95[AMR][1000 genomes];0.97[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs4428538	0.82[EUR][1000 genomes]
rs61076041	0.89[AMR][1000 genomes];0.89[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs61233650	0.97[AFR][1000 genomes];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs61318425	0.86[AMR][1000 genomes];0.93[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs67857472	0.94[AFR][1000 genomes];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6929208	0.83[AFR][1000 genomes];0.95[AMR][1000 genomes];0.97[EUR][1000 genomes];0.93[ASN][1000 genomes]

mRNA abundance (count:3)

SNP	Gene	Cis/trans	Tissue	Source
rs11757877	RP11-425D10.10	cis	Esophagus Mucosa	GTEx
rs11757877	RP11-425D10.10	cis	Skin Sun Exposed Lower leg	GTEx
rs11757877	SMPD2	cis	Whole Blood	GTEx

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:109662600-109682000	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
2	chr6:109669000-109683400	Weak transcription	Pancreatic Islets	Pancreatic Islet
3	chr6:109672000-109683000	Weak transcription	Esophagus	oesophagus
4	chr6:109673600-109683000	Weak transcription	Psoas Muscle	Psoas
5	chr6:109673600-109683200	Weak transcription	HMEC	breast
6	chr6:109673600-109683400	Weak transcription	Gastric	stomach
7	chr6:109673600-109683400	Weak transcription	HUVEC	blood vessel
8	chr6:109673600-109687000	Weak transcription	Right Ventricle	heart
9	chr6:109673800-109682800	Weak transcription	Stomach Mucosa	stomach
10	chr6:109674000-109683000	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
11	chr6:109674000-109683200	Weak transcription	Small Intestine	intestine
12	chr6:109675000-109684600	Strong transcription	Stomach Smooth Muscle	stomach
13	chr6:109675000-109691800	Strong transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
14	chr6:109675000-109692600	Strong transcription	Primary neutrophils fromperipheralblood	blood
15	chr6:109675000-109693200	Strong transcription	Monocytes-CD14+_RO01746	blood
16	chr6:109675000-109694400	Strong transcription	Rectal Mucosa Donor 29	rectum
17	chr6:109675000-109694600	Strong transcription	Primary T cells fromperipheralblood	blood
18	chr6:109675000-109700800	Strong transcription	Placenta	Placenta
19	chr6:109675200-109684400	Strong transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
20	chr6:109675200-109688800	Strong transcription	Primary T cells from cord blood	blood
21	chr6:109675200-109693200	Strong transcription	Duodenum Smooth Muscle	Duodenum
22	chr6:109675400-109691400	Strong transcription	Osteobl	bone
23	chr6:109676800-109693800	Strong transcription	Primary T helper 17 cells PMA-I stimulated	--
24	chr6:109677000-109683400	Strong transcription	Brain Inferior Temporal Lobe	brain
25	chr6:109677000-109684200	Strong transcription	Brain Hippocampus Middle	brain
26	chr6:109677000-109687200	Strong transcription	Fetal Adrenal Gland	Adrenal Gland
27	chr6:109677000-109698200	Strong transcription	Fetal Intestine Large	intestine
28	chr6:109677200-109684000	Strong transcription	Foreskin Fibroblast Primary Cells skin02	Skin
29	chr6:109677600-109683200	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
30	chr6:109677600-109695000	Weak transcription	iPS-15b Cell Line	embryonic stem cell
31	chr6:109677800-109683800	Strong transcription	Primary T helper naive cells from peripheral blood	blood
32	chr6:109677800-109700600	Strong transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
33	chr6:109678000-109683000	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
34	chr6:109678000-109684000	Strong transcription	Fetal Brain Female	brain
35	chr6:109678200-109683600	Strong transcription	Primary Natural Killer cells fromperipheralblood	blood
36	chr6:109678200-109683800	Strong transcription	Fetal Muscle Trunk	muscle
37	chr6:109678200-109687800	Strong transcription	IMR90 fetal lung fibroblasts Cell Line	lung
38	chr6:109678200-109691400	Strong transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
39	chr6:109678200-109694600	Strong transcription	Fetal Thymus	thymus
40	chr6:109678200-109695200	Strong transcription	Duodenum Mucosa	Duodenum
41	chr6:109678400-109682000	Strong transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
42	chr6:109678400-109682000	Strong transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
43	chr6:109678400-109682000	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
44	chr6:109678400-109682000	Weak transcription	Brain Substantia Nigra	brain
45	chr6:109678400-109683000	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
46	chr6:109678400-109683000	Weak transcription	H9 Cell Line	embryonic stem cell
47	chr6:109678400-109683000	Weak transcription	HUES48 Cell Line	embryonic stem cell
48	chr6:109678400-109683000	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
49	chr6:109678400-109683000	Weak transcription	Rectal Smooth Muscle	rectum
50	chr6:109678400-109683200	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived

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