Variant report

Variant	rs1770131
Chromosome Location	chr6:28086413-28086414
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr6:28085276..28086790-chr6:28319543..28321327,2	K562	blood:
2	chr6:28086053..28088186-chr6:28111853..28113998,2	MCF-7	breast:
3	chr6:28085866..28088323-chr6:28104012..28106787,2	K562	blood:

Variant related genes	Relation type
ENSG00000269293	Chromatin interaction
ENSG00000261839	Chromatin interaction

Extended variants
information (count: 49 )
Associated
traits (count: 16 )

rSNPs within LD-proxies of this variant (count:49)

rs_ID	r²[population]
rs1071893	0.86[AMR][1000 genomes];0.87[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs1150666	0.95[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.93[YRI][hapmap];0.93[AFR][1000 genomes];0.97[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs1150678	0.94[AFR][1000 genomes];0.98[EUR][1000 genomes]
rs12173797	0.86[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs1225592	0.88[AMR][1000 genomes];0.90[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs1225595	0.82[JPT][hapmap];0.88[AMR][1000 genomes];0.90[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs1225716	1.00[CEU][hapmap];0.94[CHB][hapmap];1.00[JPT][hapmap];0.93[AFR][1000 genomes];0.99[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs1233691	0.96[CEU][hapmap];0.84[CHB][hapmap];1.00[JPT][hapmap];0.88[AMR][1000 genomes];0.90[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs1233708	0.95[CEU][hapmap];0.89[CHB][hapmap];1.00[JPT][hapmap];0.83[AMR][1000 genomes];0.83[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs149897	1.00[CEU][hapmap];0.94[CHB][hapmap];0.85[JPT][hapmap];0.90[YRI][hapmap]
rs149900	0.90[YRI][hapmap]
rs149942	1.00[CEU][hapmap];0.94[CHB][hapmap];0.85[JPT][hapmap];0.90[YRI][hapmap]
rs149944	1.00[CEU][hapmap];0.94[CHB][hapmap];0.86[JPT][hapmap];0.90[YRI][hapmap]
rs149945	1.00[CEU][hapmap];0.94[CHB][hapmap];0.86[JPT][hapmap];0.90[YRI][hapmap]
rs149955	1.00[CEU][hapmap];0.94[CHB][hapmap];0.86[JPT][hapmap];0.87[YRI][hapmap];0.84[AMR][1000 genomes];0.96[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs149958	0.86[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs149959	1.00[CEU][hapmap];0.94[CHB][hapmap];0.86[JPT][hapmap];0.87[YRI][hapmap];0.86[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs149961	0.87[YRI][hapmap]
rs149962	0.86[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs149965	0.87[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs149969	0.89[YRI][hapmap]
rs149970	0.82[CHB][hapmap];0.90[YRI][hapmap]
rs149972	1.00[CEU][hapmap];0.94[CHB][hapmap];0.86[JPT][hapmap];0.90[YRI][hapmap]
rs149989	1.00[CEU][hapmap];0.94[CHB][hapmap];0.85[JPT][hapmap];0.90[YRI][hapmap]
rs156738	0.86[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs156739	1.00[CEU][hapmap];0.94[CHB][hapmap];0.86[JPT][hapmap];0.87[YRI][hapmap];0.86[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs1631552	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs172166	0.87[YRI][hapmap]
rs17711801	0.86[CEU][hapmap]
rs183244	0.91[CEU][hapmap];0.94[CHB][hapmap];0.85[JPT][hapmap];0.93[YRI][hapmap];0.85[AMR][1000 genomes];0.96[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs188105	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.97[AFR][1000 genomes];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs203876	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.88[AFR][1000 genomes];0.92[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs203877	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.88[AFR][1000 genomes];0.92[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs203882	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.98[AFR][1000 genomes];0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs203883	0.98[AFR][1000 genomes];0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs203884	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs203890	0.89[YRI][hapmap]
rs203892	0.97[AFR][1000 genomes];0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs203893	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.97[AFR][1000 genomes];0.92[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs2622319	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.94[YRI][hapmap];0.95[AFR][1000 genomes];0.97[AMR][1000 genomes];0.97[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs2791332	0.86[AFR][1000 genomes];0.96[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs476167	0.96[AFR][1000 genomes];0.92[AMR][1000 genomes];0.98[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs536704	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.93[YRI][hapmap];0.88[AFR][1000 genomes];0.92[AMR][1000 genomes];0.96[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs9295759	0.82[CEU][hapmap]
rs9295760	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.86[YRI][hapmap];0.93[AFR][1000 genomes];0.99[AMR][1000 genomes];0.98[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs9393881	0.86[YRI][hapmap]
rs9461443	0.87[CEU][hapmap]
rs9468274	0.90[YRI][hapmap]
rs9468298	0.81[CHB][hapmap]

mRNA abundance (count:16)

SNP	Gene	Cis/trans	Tissue	Source
rs1770131	AL022393.7	cis	Heart Left Ventricle	GTEx
rs1770131	ZNF323	cis	Brain Pons	GTEx
rs1770131	AL022393.7	cis	Muscle Skeletal	GTEx
rs1770131	OR2B8P	cis	Thyroid	GTEx
rs1770131	ZNF323	cis	Frontal Cortex	GTEx
rs1770131	AL022393.7	cis	Nerve Tibial	GTEx
rs1770131	RP1-265C24.9	cis	Heart Left Ventricle	GTEx
rs1770131	ZNF323	cis	Cerebellum	GTEx
rs1770131	ZNF323	cis	Temporal Cortex	GTEx
rs1770131	RP1-265C24.5	cis	Muscle Skeletal	GTEx
rs1770131	OR1F12	cis	Thyroid	GTEx
rs1770131	RP5-874C20.3	cis	Nerve Tibial	GTEx
rs1770131	AL022393.7	cis	Artery Tibial	GTEx
rs1770131	BTN3A2	Cis_chr	lymphoblastoid	RTeQTL
rs1770131	ZSCAN31	cis	Thyroid	GTEx
rs1770131		cis	Lymphoblastoid	GTEx

Chromatin state (count:120 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:28073200-28091400	Weak transcription	Primary T killer memory cells from peripheral blood	blood
2	chr6:28073200-28091800	Weak transcription	Right Ventricle	heart
3	chr6:28073400-28088000	Weak transcription	NHLF	lung
4	chr6:28073400-28091200	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
5	chr6:28073400-28091400	Weak transcription	NHDF-Ad	bronchial
6	chr6:28073400-28091800	Weak transcription	H9 Cell Line	embryonic stem cell
7	chr6:28073400-28091800	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
8	chr6:28073400-28091800	Weak transcription	Rectal Smooth Muscle	rectum
9	chr6:28073400-28092000	Weak transcription	Small Intestine	intestine
10	chr6:28073400-28092200	Weak transcription	Esophagus	oesophagus
11	chr6:28073400-28092200	Weak transcription	Gastric	stomach
12	chr6:28073400-28092200	Weak transcription	Pancreas	Pancrea
13	chr6:28073600-28091600	Weak transcription	Hela-S3	cervix
14	chr6:28073600-28091600	Weak transcription	NHEK	skin
15	chr6:28077000-28092400	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
16	chr6:28080000-28092000	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
17	chr6:28080400-28091600	Weak transcription	Pancreatic Islets	Pancreatic Islet
18	chr6:28080800-28092000	Weak transcription	Fetal Intestine Small	intestine
19	chr6:28081200-28088400	Strong transcription	Adipose Nuclei	Adipose
20	chr6:28081200-28091600	Weak transcription	ES-I3 Cell Line	embryonic stem cell
21	chr6:28081200-28091800	Weak transcription	H1 Cell Line	embryonic stem cell
22	chr6:28081400-28091600	Weak transcription	iPS-18 Cell Line	embryonic stem cell
23	chr6:28081400-28091800	Weak transcription	Colonic Mucosa	Colon
24	chr6:28081600-28086600	Strong transcription	Primary T cells from cord blood	blood
25	chr6:28081600-28087200	Strong transcription	HSMMtube	muscle
26	chr6:28081600-28088600	Strong transcription	Primary T regulatory cells fromperipheralblood	blood
27	chr6:28081600-28088800	Strong transcription	Fetal Muscle Trunk	muscle
28	chr6:28081600-28091800	Weak transcription	HMEC	breast
29	chr6:28081800-28089000	Strong transcription	Fetal Adrenal Gland	Adrenal Gland
30	chr6:28082000-28088600	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
31	chr6:28082000-28088800	Strong transcription	Fetal Thymus	thymus
32	chr6:28082000-28091000	Strong transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
33	chr6:28082000-28091400	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
34	chr6:28082000-28091600	Weak transcription	iPS-20b Cell Line	embryonic stem cell
35	chr6:28082000-28092200	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
36	chr6:28082200-28086600	Strong transcription	Breast Myoepithelial Primary Cells	Breast
37	chr6:28082200-28088400	Strong transcription	Duodenum Smooth Muscle	Duodenum
38	chr6:28082200-28091000	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
39	chr6:28082400-28088600	Strong transcription	Primary neutrophils fromperipheralblood	blood
40	chr6:28082400-28088600	Strong transcription	Fetal Muscle Leg	muscle
41	chr6:28082400-28088800	Strong transcription	Fetal Brain Female	brain
42	chr6:28082400-28089000	Strong transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
43	chr6:28082400-28090000	Strong transcription	Primary Natural Killer cells fromperipheralblood	blood
44	chr6:28082600-28087000	Strong transcription	Foreskin Melanocyte Primary Cells skin03	Skin
45	chr6:28082600-28087000	Strong transcription	K562	blood
46	chr6:28082600-28088400	Strong transcription	Primary monocytes fromperipheralblood	blood
47	chr6:28082600-28088600	Strong transcription	Primary hematopoietic stem cells	blood
48	chr6:28082600-28088600	Strong transcription	Primary hematopoietic stem cells short term culture	blood
49	chr6:28082600-28090400	Strong transcription	Monocytes-CD14+_RO01746	blood
50	chr6:28082600-28091200	Strong transcription	H9 Derived Neuron Cultured Cells	ES cell derived

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