Variant report

Variant	rs11006700
Chromosome Location	chr10:28033324-28033325
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	MAX	chr10:28033292-28034313	MCF-7	breast:	n/a	n/a
2	POLR2A	chr10:28033295-28033937	HCT-116	colon:	n/a	n/a
3	E2F6	chr10:28033207-28035994	H1-hESC	embryonic stem cell:	n/a	chr10:28034540-28034552 chr10:28035814-28035831 chr10:28035492-28035509 chr10:28034866-28034875 chr10:28034437-28034446 chr10:28034676-28034688 chr10:28035814-28035831
4	ZBTB7A	chr10:28032973-28033858	ECC-1	luminal epithelium:	n/a	chr10:28033575-28033584
5	MAX	chr10:28033193-28034288	ECC-1	luminal epithelium:	n/a	n/a
6	POLR2A	chr10:28033014-28034326	H1-neurons	neurons:	n/a	n/a
7	SUZ12	chr10:28031619-28036341	NT2-D1	testis:	n/a	n/a
8	POLR2A	chr10:28033290-28033855	HCT-116	colon:	n/a	n/a
9	E2F6	chr10:28033240-28035815	H1-hESC	embryonic stem cell:	n/a	chr10:28034540-28034552 chr10:28035492-28035509 chr10:28034866-28034875 chr10:28034437-28034446 chr10:28034676-28034688
10	MAX	chr10:28033165-28035047	ECC-1	luminal epithelium:	n/a	chr10:28034714-28034730
11	RAD21	chr10:28033195-28033391	H1-hESC	embryonic stem cell:	n/a	n/a
12	SUZ12	chr10:28033078-28034364	H1-hESC	embryonic stem cell:	n/a	n/a
13	MAX	chr10:28033295-28034134	A549	lung:	n/a	n/a
14	CTBP2	chr10:28029973-28035811	H1-hESC	embryonic stem cell:	n/a	n/a
15	REST	chr10:28033221-28033763	ECC-1	luminal epithelium:	n/a	chr10:28033533-28033542 chr10:28033560-28033580
16	POLR2A	chr10:28033086-28034042	Gliobla	brain:	n/a	n/a
17	ZBTB7A	chr10:28031277-28033843	ECC-1	luminal epithelium:	n/a	chr10:28032132-28032140 chr10:28033575-28033584
18	BACH1	chr10:28032849-28033973	H1-hESC	embryonic stem cell:	n/a	n/a

Variant related genes	Relation type
ENSG00000230500	TF binding region
MKX	TF binding region

Extended variants
information (count: 79 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:76)

rs_ID	r²[population]
rs1002861	1.00[EUR][1000 genomes]
rs1027342	1.00[EUR][1000 genomes]
rs10430558	1.00[AMR][1000 genomes];0.87[ASN][1000 genomes]
rs10430568	1.00[AMR][1000 genomes];0.87[ASN][1000 genomes]
rs1055192	1.00[ASN][1000 genomes]
rs10764718	1.00[EUR][1000 genomes]
rs10764719	1.00[EUR][1000 genomes]
rs10826346	0.86[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10829285	1.00[EUR][1000 genomes]
rs10829286	1.00[EUR][1000 genomes]
rs10829294	1.00[EUR][1000 genomes]
rs10829296	1.00[EUR][1000 genomes]
rs10829302	1.00[EUR][1000 genomes]
rs10829304	1.00[EUR][1000 genomes]
rs10829305	1.00[EUR][1000 genomes]
rs11006694	0.98[ASN][1000 genomes]
rs11006697	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs11006698	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11006699	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11006703	1.00[AMR][1000 genomes];0.87[ASN][1000 genomes]
rs11006704	1.00[AMR][1000 genomes];0.87[ASN][1000 genomes]
rs11006705	1.00[AMR][1000 genomes];0.87[ASN][1000 genomes]
rs11006707	1.00[AMR][1000 genomes];0.87[ASN][1000 genomes]
rs11006708	0.86[ASN][1000 genomes]
rs11006714	0.83[ASN][1000 genomes]
rs11006715	0.83[ASN][1000 genomes]
rs11006719	0.80[ASN][1000 genomes]
rs11006720	0.80[ASN][1000 genomes]
rs11015875	0.86[EUR][1000 genomes]
rs11015898	1.00[EUR][1000 genomes]
rs11015923	1.00[EUR][1000 genomes]
rs11015927	1.00[EUR][1000 genomes]
rs11015928	1.00[EUR][1000 genomes]
rs11015936	1.00[EUR][1000 genomes]
rs11015938	1.00[EUR][1000 genomes]
rs11015946	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs11015948	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs11015957	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs11015958	0.86[EUR][1000 genomes]
rs11015969	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs11015973	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs11015980	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs11015981	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs12217955	1.00[EUR][1000 genomes]
rs12218027	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs12219258	0.86[EUR][1000 genomes]
rs12219955	1.00[EUR][1000 genomes]
rs12220217	1.00[EUR][1000 genomes]
rs12257550	0.86[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs12264856	1.00[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs12411804	0.86[EUR][1000 genomes]
rs12569521	1.00[EUR][1000 genomes]
rs12572531	1.00[EUR][1000 genomes]
rs17756253	0.86[EUR][1000 genomes]
rs1907388	0.86[EUR][1000 genomes]
rs57812861	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs72629762	0.86[EUR][1000 genomes]
rs72629763	0.86[EUR][1000 genomes]
rs72629764	0.86[EUR][1000 genomes]
rs72629766	1.00[EUR][1000 genomes]
rs72629767	1.00[EUR][1000 genomes]
rs72629772	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs72629774	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs72629775	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs72629776	1.00[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs72629777	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs72629778	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs72631837	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs72631838	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs72631839	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs72631840	0.87[ASN][1000 genomes]
rs72631841	0.85[ASN][1000 genomes]
rs72631842	0.83[ASN][1000 genomes]
rs72631843	0.83[ASN][1000 genomes]
rs7358151	0.86[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs8181307	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.93[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	esv3368825	chr10:27864181-28043820	Enhancers Flanking Active TSS Flanking Bivalent TSS/Enh Weak transcription Bivalent Enhancer Bivalent/Poised TSS Active TSS ZNF genes & repeats Strong transcription Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	2 gene(s)	inside rSNPs	diseases
2	nsv831813	chr10:28017606-28200651	Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS Flanking Active TSS Active TSS Enhancers Weak transcription ZNF genes & repeats Strong transcription Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
3	nsv917149	chr10:28018919-28688694	Enhancers Active TSS Weak transcription Bivalent Enhancer Flanking Bivalent TSS/Enh Flanking Active TSS Bivalent/Poised TSS Strong transcription ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	16 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:119 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr10:28029800-28035800	Bivalent/Poised TSS	HUES64 Cell Line	embryonic stem cell
2	chr10:28029800-28036000	Bivalent/Poised TSS	H9 Cell Line	embryonic stem cell
3	chr10:28030000-28033400	Bivalent/Poised TSS	iPS DF 6.9 Cell Line	embryonic stem cell
4	chr10:28030000-28033600	Bivalent/Poised TSS	iPS-18 Cell Line	embryonic stem cell
5	chr10:28030000-28036600	Bivalent/Poised TSS	ES-I3 Cell Line	embryonic stem cell
6	chr10:28030200-28036200	Bivalent Enhancer	Fetal Brain Male	brain
7	chr10:28030200-28036400	Bivalent/Poised TSS	iPS-15b Cell Line	embryonic stem cell
8	chr10:28030400-28033400	Bivalent/Poised TSS	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
9	chr10:28030600-28035400	Flanking Bivalent TSS/Enh	Foreskin Keratinocyte Primary Cells skin03	Skin
10	chr10:28030800-28033400	Flanking Bivalent TSS/Enh	Primary neutrophils fromperipheralblood	blood
11	chr10:28030800-28033800	Bivalent/Poised TSS	HUES48 Cell Line	embryonic stem cell
12	chr10:28030800-28035000	Flanking Bivalent TSS/Enh	Fetal Brain Female	brain
13	chr10:28030800-28035600	Flanking Bivalent TSS/Enh	Primary T helper cells fromperipheralblood	blood
14	chr10:28030800-28035800	Active TSS	Aorta	Aorta
15	chr10:28031000-28033600	Bivalent/Poised TSS	H1 Cell Line	embryonic stem cell
16	chr10:28031000-28033600	Flanking Bivalent TSS/Enh	Foreskin Melanocyte Primary Cells skin03	Skin
17	chr10:28031000-28033600	Active TSS	Right Atrium	heart
18	chr10:28031000-28035400	Flanking Bivalent TSS/Enh	Brain Germinal Matrix	brain
19	chr10:28031000-28035400	Active TSS	Ovary	ovary
20	chr10:28031200-28033400	Flanking Bivalent TSS/Enh	Fetal Muscle Trunk	muscle
21	chr10:28031200-28034000	Flanking Bivalent TSS/Enh	Rectal Mucosa Donor 31	rectum
22	chr10:28031200-28034800	Bivalent/Poised TSS	NHLF	lung
23	chr10:28031200-28035800	Flanking Bivalent TSS/Enh	Foreskin Fibroblast Primary Cells skin01	Skin
24	chr10:28031400-28035600	Flanking Bivalent TSS/Enh	Foreskin Fibroblast Primary Cells skin02	Skin
25	chr10:28031400-28035800	Flanking Bivalent TSS/Enh	Primary hematopoietic stem cells G-CSF-mobilized Male	--
26	chr10:28031400-28035800	Flanking Bivalent TSS/Enh	Ganglion Eminence derived primary cultured neurospheres	brain
27	chr10:28031600-28033400	Flanking Bivalent TSS/Enh	Primary monocytes fromperipheralblood	blood
28	chr10:28031600-28033400	Flanking Bivalent TSS/Enh	Primary T cells from cord blood	blood
29	chr10:28031600-28033600	Flanking Bivalent TSS/Enh	Primary B cells from cord blood	blood
30	chr10:28031600-28034600	Flanking Bivalent TSS/Enh	Primary T cells fromperipheralblood	blood
31	chr10:28031600-28035200	Flanking Bivalent TSS/Enh	Primary T helper cells PMA-I stimulated	--
32	chr10:28031600-28035600	Flanking Bivalent TSS/Enh	Colonic Mucosa	Colon
33	chr10:28031600-28035600	Flanking Bivalent TSS/Enh	Skeletal Muscle Male	skeletal muscle
34	chr10:28031600-28035600	Flanking Bivalent TSS/Enh	Skeletal Muscle Female	skeletal muscle
35	chr10:28031600-28035600	Flanking Bivalent TSS/Enh	Monocytes-CD14+_RO01746	blood
36	chr10:28031800-28033800	Flanking Active TSS	H1 Derived Mesenchymal Stem Cells	ES cell derived
37	chr10:28031800-28033800	Flanking Bivalent TSS/Enh	ES-UCSF4 Cell Line	embryonic stem cell
38	chr10:28031800-28034000	Flanking Active TSS	Liver	Liver
39	chr10:28031800-28034400	Flanking Bivalent TSS/Enh	Duodenum Mucosa	Duodenum
40	chr10:28031800-28034600	Flanking Bivalent TSS/Enh	Foreskin Keratinocyte Primary Cells skin02	Skin
41	chr10:28031800-28034600	Flanking Bivalent TSS/Enh	Fetal Stomach	stomach
42	chr10:28031800-28034800	Flanking Bivalent TSS/Enh	iPS DF 19.11 Cell Line	embryonic stem cell
43	chr10:28031800-28035400	Bivalent/Poised TSS	HSMM	muscle
44	chr10:28031800-28035800	Flanking Bivalent TSS/Enh	Fetal Muscle Leg	muscle
45	chr10:28032000-28034000	Flanking Bivalent TSS/Enh	Adipose Nuclei	Adipose
46	chr10:28032000-28034200	Flanking Bivalent TSS/Enh	Brain Inferior Temporal Lobe	brain
47	chr10:28032000-28035200	Bivalent/Poised TSS	HSMMtube	muscle
48	chr10:28032200-28033800	Bivalent/Poised TSS	Brain Anterior Caudate	brain
49	chr10:28032200-28034200	Flanking Bivalent TSS/Enh	Brain Cingulate Gyrus	brain
50	chr10:28032200-28034800	Bivalent Enhancer	Primary Natural Killer cells fromperipheralblood	blood

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