Variant report

Variant	rs6937989
Chromosome Location	chr6:133071855-133071856
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Transcrition factor	Chromosome Location	Cell Line	Cell type	Cell Stage	Matched TF binding sites
1	EP300	chr6:133071838-133072961	GM12878	blood:	n/a	chr6:133071869-133071883
2	EP300	chr6:133071844-133072286	GM12878	blood:	n/a	chr6:133071869-133071883
3	NFIC	chr6:133071734-133072896	GM12878	blood:	n/a	chr6:133072178-133072194
4	EBF1	chr6:133071817-133072273	GM12878	blood:	n/a	n/a
5	RUNX3	chr6:133071808-133072250	GM12878	blood:	n/a	n/a
6	MTA3	chr6:133071734-133072853	GM12878	blood:	n/a	n/a
7	ZNF384	chr6:133071678-133072214	GM12878	blood:	n/a	n/a
8	JUND	chr6:133071752-133072881	GM12878	blood:	n/a	n/a
9	RUNX3	chr6:133071735-133072917	GM12878	blood:	n/a	n/a
10	BATF	chr6:133071821-133072331	GM12878	blood:	n/a	n/a
11	ATF2	chr6:133071740-133072486	GM12878	blood:	n/a	n/a
12	NFIC	chr6:133071712-133072296	GM12878	blood:	n/a	chr6:133072178-133072194
13	TBL1XR1	chr6:133071846-133072864	GM12878	blood:	n/a	n/a

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr6:133070450..133072102-chr6:133074566..133077199,2	K562	blood:

Variant related genes	Relation type
ENSG00000234484	TF binding region

Extended variants
information (count: 30 )
Associated
traits (count: 5 )

rSNPs within LD-proxies of this variant (count:27)

rs_ID	r²[population]
rs11752749	0.92[AMR][1000 genomes];0.95[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs12526754	0.87[AMR][1000 genomes];0.98[ASN][1000 genomes]
rs1883613	0.92[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1883617	0.94[AMR][1000 genomes];0.99[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs2294758	0.92[AMR][1000 genomes];0.95[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs2294759	0.86[AMR][1000 genomes];0.90[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs2300079	0.87[AFR][1000 genomes];0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2327276	0.92[ASN][1000 genomes]
rs3756974	0.82[AMR][1000 genomes];0.90[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs3813349	0.92[AMR][1000 genomes];0.96[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs4897614	0.90[ASN][1000 genomes]
rs56739181	0.93[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6569836	0.92[ASN][1000 genomes]
rs6569837	0.92[ASN][1000 genomes]
rs6569839	0.92[ASN][1000 genomes]
rs6569841	0.92[ASN][1000 genomes]
rs6569842	0.92[ASN][1000 genomes]
rs6569843	0.87[AMR][1000 genomes];0.98[ASN][1000 genomes]
rs6899338	0.92[AMR][1000 genomes];0.96[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs6935500	0.92[AMR][1000 genomes];0.95[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs6938188	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6942306	0.92[ASN][1000 genomes]
rs764263	0.84[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs7770949	0.92[ASN][1000 genomes]
rs9493423	0.88[AFR][1000 genomes];0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9493425	0.93[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs960711	0.92[AMR][1000 genomes];0.96[EUR][1000 genomes];0.99[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:3 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv532069	chr6:132776411-133462292	Active TSS Strong transcription Weak transcription Enhancers Transcr. at gene 5' and 3' Flanking Active TSS Genic enhancers Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	90 gene(s)	inside rSNPs	diseases
2	nsv1015742	chr6:132933666-133285852	Active TSS Flanking Active TSS Enhancers Strong transcription Weak transcription Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	71 gene(s)	inside rSNPs	diseases
3	nsv517934	chr6:133062916-133072650	Genic enhancers Enhancers Weak transcription Transcr. at gene 5' and 3' Strong transcription ZNF genes & repeats Flanking Active TSS Active TSS	TF binding region Chromatin interactive region	2 gene(s)	inside rSNPs	diseases

mRNA abundance (count:5)

SNP	Gene	Cis/trans	Tissue	Source
rs6937989	VNN3	cis	Whole Blood	GTEx
rs6937989	VNN2	cis	Whole Blood	GTEx
rs6937989	VNN1	cis	Whole Blood	GTEx
rs6937989	VNN2	Cis_1M	lymphoblastoid	RTeQTL
rs6937989	RP1-55C23.7	cis	Whole Blood	GTEx

Chromatin state (count:31 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:133061400-133098000	Weak transcription	Spleen	Spleen
2	chr6:133061600-133072200	Weak transcription	Primary T helper naive cells from peripheral blood	blood
3	chr6:133063600-133072200	Strong transcription	Primary T helper cells fromperipheralblood	blood
4	chr6:133064200-133072000	Weak transcription	Primary T killer memory cells from peripheral blood	blood
5	chr6:133064200-133083000	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
6	chr6:133064800-133078000	Strong transcription	Primary T cells from cord blood	blood
7	chr6:133065000-133098000	Weak transcription	Sigmoid Colon	Sigmoid Colon
8	chr6:133065400-133073800	Strong transcription	Primary T helper naive cells fromperipheralblood	blood
9	chr6:133068800-133083200	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
10	chr6:133069600-133083200	Weak transcription	Thymus	Thymus
11	chr6:133069800-133075200	Weak transcription	Primary hematopoietic stem cells	blood
12	chr6:133070000-133072000	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
13	chr6:133070000-133072000	Enhancers	Primary monocytes fromperipheralblood	blood
14	chr6:133070000-133072200	Flanking Active TSS	Monocytes-CD14+_RO01746	blood
15	chr6:133070200-133073800	Genic enhancers	Primary B cells from peripheral blood	blood
16	chr6:133070400-133072400	Strong transcription	Primary T helper cells PMA-I stimulated	--
17	chr6:133070600-133072000	Enhancers	Primary T regulatory cells fromperipheralblood	blood
18	chr6:133070800-133072000	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
19	chr6:133070800-133072200	Weak transcription	Primary T cells fromperipheralblood	blood
20	chr6:133070800-133072200	Weak transcription	Stomach Mucosa	stomach
21	chr6:133070800-133072400	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
22	chr6:133070800-133073000	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
23	chr6:133070800-133077600	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
24	chr6:133070800-133078800	Weak transcription	Placenta	Placenta
25	chr6:133070800-133079000	Strong transcription	Primary Natural Killer cells fromperipheralblood	blood
26	chr6:133071200-133072200	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
27	chr6:133071200-133072400	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
28	chr6:133071400-133073000	Strong transcription	Primary B cells from cord blood	blood
29	chr6:133071600-133072000	Active TSS	GM12878-XiMat	blood
30	chr6:133071600-133072200	Genic enhancers	Primary neutrophils fromperipheralblood	blood
31	chr6:133071600-133072800	Enhancers	Liver	Liver

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