Variant report

Variant	rs7757241
Chromosome Location	chr6:36893619-36893620
allele	A/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr6:36890243..36895519-chr6:36897368..36902270,7	K562	blood:
2	chr6:36830142..36832721-chr6:36892785..36895215,2	K562	blood:
3	chr6:36856383..36858812-chr6:36892219..36894904,2	K562	blood:

Extended variants
information (count: 76 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:74)

rs_ID	r²[population]
rs1022696	1.00[CEU][hapmap];0.83[CHB][hapmap];0.85[JPT][hapmap]
rs10456446	0.85[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs1046578	1.00[CEU][hapmap];0.83[CHB][hapmap];0.95[JPT][hapmap];0.97[AMR][1000 genomes];0.97[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs10498736	0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10947638	0.82[AMR][1000 genomes];0.93[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs10947639	0.83[AMR][1000 genomes];0.90[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs10947640	1.00[CEU][hapmap];0.85[AMR][1000 genomes];0.93[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs10947645	1.00[CEU][hapmap];1.00[CHB][hapmap];0.90[JPT][hapmap];0.87[AMR][1000 genomes];0.98[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs10947647	1.00[CEU][hapmap];0.83[CHB][hapmap];0.95[JPT][hapmap];0.86[AMR][1000 genomes];0.93[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs10947649	0.90[JPT][hapmap];0.92[ASN][1000 genomes]
rs11757380	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.86[AMR][1000 genomes];0.98[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs11759850	1.00[CEU][hapmap];0.82[CHB][hapmap];0.86[JPT][hapmap];0.86[AMR][1000 genomes];0.93[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs11963298	1.00[CEU][hapmap];1.00[CHB][hapmap];0.95[JPT][hapmap];0.82[AMR][1000 genomes];0.93[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs11970506	0.93[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs12110889	1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs12193721	0.85[EUR][1000 genomes]
rs12194154	1.00[CEU][hapmap];1.00[CHB][hapmap];0.83[JPT][hapmap];0.81[AMR][1000 genomes];0.93[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs12202755	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.91[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs12213912	1.00[CEU][hapmap];1.00[CHB][hapmap];0.95[JPT][hapmap];0.81[AMR][1000 genomes];0.93[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs13190998	0.81[ASN][1000 genomes]
rs13199306	0.92[AMR][1000 genomes];0.93[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs13219894	0.81[CHB][hapmap];0.81[ASN][1000 genomes]
rs16889252	1.00[CEU][hapmap];0.82[CHB][hapmap];0.85[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs2272275	1.00[CEU][hapmap];0.83[CHB][hapmap];0.95[JPT][hapmap];0.91[AMR][1000 genomes];0.99[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs2272276	0.94[CEU][hapmap];0.84[JPT][hapmap];0.88[AMR][1000 genomes];0.99[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs2280675	1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs2293391	0.87[ASN][1000 genomes]
rs2293392	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.88[AMR][1000 genomes];0.99[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs2296932	0.84[ASN][1000 genomes]
rs2395663	1.00[CEU][hapmap];0.83[CHB][hapmap];0.85[JPT][hapmap];0.88[AMR][1000 genomes];0.97[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs3074	1.00[CEU][hapmap];0.83[CHB][hapmap];0.95[JPT][hapmap];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs34453243	0.90[ASN][1000 genomes]
rs34605868	0.87[ASN][1000 genomes]
rs36048521	0.85[ASN][1000 genomes]
rs3734331	0.89[ASN][1000 genomes]
rs3734333	1.00[CEU][hapmap];0.83[CHB][hapmap];0.95[JPT][hapmap];0.97[AMR][1000 genomes];0.96[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs3798469	0.81[CHB][hapmap]
rs3957238	0.90[CEU][hapmap];0.83[CHB][hapmap];0.81[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs4475317	0.88[AMR][1000 genomes];0.97[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs4711473	0.86[AMR][1000 genomes];0.91[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs4711474	0.98[EUR][1000 genomes]
rs4714023	1.00[CEU][hapmap];0.83[CHB][hapmap];0.93[EUR][1000 genomes]
rs59892114	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs60992755	0.81[ASN][1000 genomes]
rs61054996	0.84[ASN][1000 genomes]
rs6457964	1.00[CEU][hapmap];0.87[CHB][hapmap];0.85[JPT][hapmap];0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs67854134	0.85[ASN][1000 genomes]
rs6901884	0.94[CEU][hapmap];1.00[CHB][hapmap];0.84[JPT][hapmap];0.90[AMR][1000 genomes];0.94[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs6904504	0.88[AMR][1000 genomes];0.97[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs6918914	0.84[ASN][1000 genomes]
rs6920322	0.82[ASN][1000 genomes]
rs6932038	1.00[CEU][hapmap];0.85[AMR][1000 genomes];0.97[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs6932175	1.00[CEU][hapmap];0.83[CHB][hapmap];0.85[JPT][hapmap];0.86[AMR][1000 genomes];0.96[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs73420397	0.84[ASN][1000 genomes]
rs7741378	0.84[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs7743646	1.00[CEU][hapmap];0.83[CHB][hapmap];0.95[JPT][hapmap];0.90[AMR][1000 genomes];0.99[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs7743836	1.00[CEU][hapmap];0.83[CHB][hapmap];0.95[JPT][hapmap];0.91[AMR][1000 genomes];0.99[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs7761425	0.81[EUR][1000 genomes]
rs7761653	1.00[CEU][hapmap];0.83[CHB][hapmap];0.95[JPT][hapmap];0.86[AMR][1000 genomes];0.97[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs7770155	0.91[AMR][1000 genomes];0.99[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs7774420	1.00[CEU][hapmap];0.83[CHB][hapmap];0.95[JPT][hapmap];0.91[AMR][1000 genomes];0.99[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs9296200	1.00[CEU][hapmap];0.83[CHB][hapmap];0.82[JPT][hapmap];0.86[AMR][1000 genomes];0.92[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs9462233	0.85[ASN][1000 genomes]
rs9462236	0.81[ASN][1000 genomes]
rs9462238	0.85[AMR][1000 genomes];0.92[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs9462239	0.83[AMR][1000 genomes];0.97[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs9462240	1.00[CEU][hapmap];0.83[CHB][hapmap];0.85[JPT][hapmap];0.86[AMR][1000 genomes];0.97[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs9462241	1.00[CEU][hapmap];0.83[CHB][hapmap];0.86[AMR][1000 genomes];0.97[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs9470429	0.81[ASN][1000 genomes]
rs9470434	0.90[AMR][1000 genomes];0.99[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs9470439	0.92[AMR][1000 genomes];0.93[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs9918461	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.85[AMR][1000 genomes];0.93[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs9969040	1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs997674	0.81[CHB][hapmap];0.81[JPT][hapmap];0.85[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:2 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1030015	chr6:36818510-37104446	Active TSS Enhancers Flanking Active TSS Weak transcription Genic enhancers Strong transcription Flanking Bivalent TSS/Enh Bivalent Enhancer Transcr. at gene 5' and 3' Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	41 gene(s)	inside rSNPs	diseases
2	nsv916833	chr6:36826524-37029833	Enhancers Active TSS Strong transcription Bivalent Enhancer Flanking Active TSS Weak transcription Genic enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	38 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs7757241	C6orf89	Cis_1M	lymphoblastoid	RTeQTL

Chromatin state (count:111 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:36866200-36896400	Strong transcription	Primary neutrophils fromperipheralblood	blood
2	chr6:36867000-36897000	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
3	chr6:36877800-36896000	Strong transcription	Breast Myoepithelial Primary Cells	Breast
4	chr6:36879400-36894000	Strong transcription	Fetal Brain Female	brain
5	chr6:36879600-36894000	Strong transcription	H9 Derived Neuron Cultured Cells	ES cell derived
6	chr6:36879600-36895400	Strong transcription	Brain Germinal Matrix	brain
7	chr6:36880200-36893800	Strong transcription	K562	blood
8	chr6:36880600-36900000	Weak transcription	Pancreatic Islets	Pancreatic Islet
9	chr6:36881000-36894800	Weak transcription	Fetal Brain Male	brain
10	chr6:36881400-36893800	Strong transcription	Foreskin Melanocyte Primary Cells skin03	Skin
11	chr6:36881400-36896200	Strong transcription	Primary mononuclear cells fromperipheralblood	Blood
12	chr6:36882000-36893800	Strong transcription	Liver	Liver
13	chr6:36882200-36894000	Strong transcription	Primary T regulatory cells fromperipheralblood	blood
14	chr6:36882400-36893800	Strong transcription	Duodenum Mucosa	Duodenum
15	chr6:36882400-36894800	Strong transcription	Fetal Intestine Small	intestine
16	chr6:36882400-36895600	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
17	chr6:36882400-36896800	Weak transcription	Hela-S3	cervix
18	chr6:36882600-36893800	Strong transcription	Primary T helper cells PMA-I stimulated	--
19	chr6:36882600-36893800	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
20	chr6:36882600-36893800	Strong transcription	Sigmoid Colon	Sigmoid Colon
21	chr6:36882600-36894000	Strong transcription	Dnd41	blood
22	chr6:36882800-36893800	Strong transcription	Primary T helper cells fromperipheralblood	blood
23	chr6:36883600-36893800	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
24	chr6:36884000-36895400	Strong transcription	Monocytes-CD14+_RO01746	blood
25	chr6:36884400-36894200	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
26	chr6:36884800-36901200	Weak transcription	HMEC	breast
27	chr6:36886800-36893800	Strong transcription	Fetal Stomach	stomach
28	chr6:36886800-36895400	Weak transcription	Psoas Muscle	Psoas
29	chr6:36887400-36894600	Weak transcription	Ovary	ovary
30	chr6:36887600-36895600	Weak transcription	Right Atrium	heart
31	chr6:36887800-36893800	Strong transcription	Lung	lung
32	chr6:36888000-36894200	Strong transcription	Left Ventricle	heart
33	chr6:36888000-36895400	Weak transcription	Colonic Mucosa	Colon
34	chr6:36888200-36893800	Strong transcription	Stomach Smooth Muscle	stomach
35	chr6:36888400-36894200	Strong transcription	Fetal Adrenal Gland	Adrenal Gland
36	chr6:36888400-36895600	Weak transcription	Stomach Mucosa	stomach
37	chr6:36888600-36893800	Strong transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
38	chr6:36889400-36895000	Weak transcription	Fetal Heart	heart
39	chr6:36889400-36897400	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
40	chr6:36890000-36893800	Strong transcription	Primary T helper 17 cells PMA-I stimulated	--
41	chr6:36890400-36894000	Strong transcription	Adipose Nuclei	Adipose
42	chr6:36890400-36894000	Strong transcription	Skeletal Muscle Female	skeletal muscle
43	chr6:36890600-36894000	Genic enhancers	Foreskin Fibroblast Primary Cells skin02	Skin
44	chr6:36891200-36894800	Strong transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
45	chr6:36891400-36893800	Strong transcription	Primary B cells from cord blood	blood
46	chr6:36891600-36894000	Weak transcription	Primary T killer memory cells from peripheral blood	blood
47	chr6:36891600-36901800	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
48	chr6:36891800-36894000	Strong transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
49	chr6:36891800-36894000	Genic enhancers	Brain Substantia Nigra	brain
50	chr6:36891800-36897800	Weak transcription	Primary T killer naive cells fromperipheralblood	blood

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