Variant report

Variant	rs10499045
Chromosome Location	chr6:107085574-107085575
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	KAP1	chr6:107084952-107085601	U2OS	brain:	n/a	n/a
2	RELA	chr6:107084935-107086054	GM19193	blood:	n/a	n/a
3	POLR2A	chr6:107084764-107086196	GM12891	blood:	n/a	n/a
4	SPI1	chr6:107085140-107086124	GM12878	blood:	n/a	n/a
5	TBL1XR1	chr6:107085119-107085928	GM12878	blood:	n/a	n/a
6	RELA	chr6:107084912-107086108	GM18951	blood:	n/a	n/a
7	ZNF384	chr6:107085524-107086078	GM12878	blood:	n/a	n/a
8	NFIC	chr6:107085358-107086217	GM12878	blood:	n/a	n/a
9	RELA	chr6:107084971-107086098	GM10847	blood:	n/a	n/a
10	EP300	chr6:107085437-107086051	GM12878	blood:	n/a	chr6:107085735-107085749
11	RUNX3	chr6:107085285-107086117	GM12878	blood:	n/a	n/a
12	SPI1	chr6:107085499-107085959	HL-60	blood:	n/a	n/a
13	MAX	chr6:107085182-107085597	H1-hESC	embryonic stem cell:	n/a	n/a
14	SPI1	chr6:107085568-107085919	GM12878	blood:	n/a	n/a
15	SPI1	chr6:107085568-107085955	GM12878	blood:	n/a	n/a
16	SPI1	chr6:107085480-107085986	GM12891	blood:	n/a	n/a
17	SPI1	chr6:107085448-107085974	HL-60	blood:	n/a	n/a
18	CUX1	chr6:107085385-107085973	GM12878	blood:	n/a	n/a
19	ATF2	chr6:107085426-107086035	GM12878	blood:	n/a	n/a
20	NFATC1	chr6:107085248-107086017	GM12878	blood:	n/a	n/a
21	IKZF1	chr6:107084949-107086027	GM12878	blood:	n/a	n/a
22	CUX1	chr6:107085570-107085860	K562	blood:	n/a	n/a
23	SPI1	chr6:107085315-107086050	GM12891	blood:	n/a	n/a
24	MEF2A	chr6:107085466-107086009	GM12878	blood:	n/a	n/a
25	NFIC	chr6:107085429-107086012	GM12878	blood:	n/a	n/a
26	KAP1	chr6:107084827-107085952	HEK293	kidney:	n/a	n/a
27	MTA3	chr6:107085052-107086236	GM12878	blood:	n/a	n/a

Variant related genes	Relation type
RPL21P65	TF binding region

Extended variants
information (count: 48 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:47)

rs_ID	r²[population]
rs12110543	0.80[ASW][hapmap];0.93[CHB][hapmap];0.86[CHD][hapmap];1.00[JPT][hapmap];0.85[AMR][1000 genomes];1.00[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs12111259	0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs12660628	0.83[JPT][hapmap];1.00[YRI][hapmap];0.95[AFR][1000 genomes]
rs12663415	0.86[YRI][hapmap];0.95[AFR][1000 genomes]
rs12663879	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[EUR][1000 genomes]
rs1824619	0.93[CHB][hapmap];1.00[JPT][hapmap];1.00[EUR][1000 genomes]
rs2035152	0.86[CHB][hapmap];1.00[JPT][hapmap];1.00[EUR][1000 genomes]
rs2035153	0.91[CHB][hapmap];0.92[JPT][hapmap];1.00[EUR][1000 genomes]
rs2035154	0.93[CHB][hapmap];0.89[CHD][hapmap];1.00[JPT][hapmap]
rs2035155	0.93[CHB][hapmap];1.00[JPT][hapmap];1.00[EUR][1000 genomes]
rs3747791	0.80[ASW][hapmap];0.93[CHB][hapmap];0.86[CHD][hapmap];1.00[JPT][hapmap];0.85[AMR][1000 genomes];1.00[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs3747792	0.85[AMR][1000 genomes];1.00[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs3804343	0.83[JPT][hapmap];0.90[YRI][hapmap];0.97[AFR][1000 genomes]
rs4946769	0.93[CHB][hapmap];0.86[CHD][hapmap];1.00[JPT][hapmap];1.00[EUR][1000 genomes]
rs4946771	0.93[CHB][hapmap];1.00[JPT][hapmap];1.00[EUR][1000 genomes]
rs4946772	1.00[EUR][1000 genomes]
rs4946773	0.93[CHB][hapmap];0.88[JPT][hapmap]
rs56390046	0.95[AFR][1000 genomes]
rs59238907	0.85[AMR][1000 genomes];1.00[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs6568446	0.93[CHB][hapmap];1.00[JPT][hapmap]
rs6900830	0.92[CHB][hapmap];1.00[JPT][hapmap];1.00[EUR][1000 genomes]
rs6900886	0.93[CHB][hapmap];1.00[JPT][hapmap];1.00[EUR][1000 genomes]
rs6905061	0.85[AMR][1000 genomes];1.00[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs6905519	0.92[CHB][hapmap];1.00[JPT][hapmap];1.00[EUR][1000 genomes]
rs6906495	0.93[CHB][hapmap];1.00[JPT][hapmap];1.00[EUR][1000 genomes]
rs6910496	0.92[ASW][hapmap];0.92[LWK][hapmap];0.86[MEX][hapmap];0.90[YRI][hapmap];0.95[AFR][1000 genomes]
rs6914497	0.92[CHB][hapmap];0.88[JPT][hapmap]
rs6916265	0.93[CHB][hapmap];0.94[JPT][hapmap];1.00[EUR][1000 genomes]
rs6919395	0.93[CHB][hapmap];0.86[CHD][hapmap];1.00[JPT][hapmap];1.00[EUR][1000 genomes]
rs6923868	0.93[CHB][hapmap];0.86[CHD][hapmap];1.00[JPT][hapmap];1.00[EUR][1000 genomes]
rs6925367	0.93[CHB][hapmap];1.00[JPT][hapmap];1.00[EUR][1000 genomes]
rs6925512	0.92[CHB][hapmap];1.00[JPT][hapmap];1.00[EUR][1000 genomes]
rs6933064	0.86[CHB][hapmap];1.00[JPT][hapmap];0.85[AMR][1000 genomes];1.00[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs72613231	1.00[EUR][1000 genomes]
rs72613232	1.00[EUR][1000 genomes]
rs72613233	1.00[EUR][1000 genomes]
rs72613234	1.00[EUR][1000 genomes]
rs72613235	1.00[EUR][1000 genomes]
rs72613236	1.00[EUR][1000 genomes]
rs72613237	0.82[AMR][1000 genomes];1.00[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs72613238	0.85[AMR][1000 genomes];1.00[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs72613239	0.95[AFR][1000 genomes]
rs72613240	0.92[AFR][1000 genomes]
rs72613241	0.83[AMR][1000 genomes];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs7454323	1.00[EUR][1000 genomes]
rs7748400	0.93[CHB][hapmap];1.00[JPT][hapmap];0.85[AMR][1000 genomes];1.00[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs7759021	0.93[CHB][hapmap];0.86[CHD][hapmap];1.00[JPT][hapmap];1.00[EUR][1000 genomes]

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

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv532047	chr6:106591482-107143252	Weak transcription Enhancers Strong transcription Genic enhancers Flanking Bivalent TSS/Enh Flanking Active TSS Bivalent Enhancer ZNF genes & repeats Active TSS Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	40 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:118 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:107078000-107090000	Weak transcription	Aorta	Aorta
2	chr6:107078400-107090400	Weak transcription	HSMMtube	muscle
3	chr6:107078600-107086000	Weak transcription	Primary T cells from cord blood	blood
4	chr6:107078600-107086400	Weak transcription	Psoas Muscle	Psoas
5	chr6:107078600-107086600	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
6	chr6:107078600-107086600	Weak transcription	Primary T helper cells PMA-I stimulated	--
7	chr6:107078600-107087400	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
8	chr6:107078600-107087800	Weak transcription	Rectal Mucosa Donor 31	rectum
9	chr6:107078600-107088000	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
10	chr6:107078600-107088000	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
11	chr6:107078600-107088200	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
12	chr6:107078600-107089000	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
13	chr6:107078600-107089000	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
14	chr6:107078600-107089400	Weak transcription	Stomach Smooth Muscle	stomach
15	chr6:107078600-107089600	Weak transcription	Fetal Intestine Small	intestine
16	chr6:107078600-107089800	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
17	chr6:107078600-107090000	Weak transcription	Fetal Muscle Trunk	muscle
18	chr6:107078600-107090000	Weak transcription	Fetal Muscle Leg	muscle
19	chr6:107078600-107090000	Weak transcription	Fetal Stomach	stomach
20	chr6:107078600-107090000	Weak transcription	Right Ventricle	heart
21	chr6:107078600-107090200	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
22	chr6:107078600-107090200	Weak transcription	Fetal Intestine Large	intestine
23	chr6:107078600-107090200	Weak transcription	Fetal Lung	lung
24	chr6:107078600-107090200	Weak transcription	Ovary	ovary
25	chr6:107078600-107090400	Weak transcription	Brain Hippocampus Middle	brain
26	chr6:107078600-107090400	Weak transcription	Esophagus	oesophagus
27	chr6:107078600-107090400	Weak transcription	Gastric	stomach
28	chr6:107078600-107090400	Weak transcription	HSMM	muscle
29	chr6:107078600-107090600	Weak transcription	Cortex derived primary cultured neurospheres	brain
30	chr6:107078600-107090600	Weak transcription	Fetal Brain Female	brain
31	chr6:107078600-107092000	Weak transcription	Brain Germinal Matrix	brain
32	chr6:107078600-107092600	Weak transcription	Brain Anterior Caudate	brain
33	chr6:107078600-107093000	Weak transcription	Colonic Mucosa	Colon
34	chr6:107078600-107100200	Weak transcription	Rectal Smooth Muscle	rectum
35	chr6:107078600-107100400	Weak transcription	Primary T helper naive cells from peripheral blood	blood
36	chr6:107078600-107103800	Weak transcription	Fetal Brain Male	brain
37	chr6:107078600-107104200	Weak transcription	Brain Angular Gyrus	brain
38	chr6:107078600-107106200	Weak transcription	Pancreatic Islets	Pancreatic Islet
39	chr6:107078600-107106600	Weak transcription	NH-A	brain
40	chr6:107078600-107110200	Weak transcription	NHLF	lung
41	chr6:107078600-107110800	Weak transcription	Fetal Heart	heart
42	chr6:107078600-107115200	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
43	chr6:107078600-107125200	Weak transcription	Stomach Mucosa	stomach
44	chr6:107078800-107086600	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
45	chr6:107078800-107087400	Weak transcription	HUVEC	blood vessel
46	chr6:107078800-107087800	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
47	chr6:107078800-107088000	Weak transcription	HUES64 Cell Line	embryonic stem cell
48	chr6:107078800-107088200	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
49	chr6:107078800-107089000	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
50	chr6:107078800-107089400	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain

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