Variant report

Variant	rs12777107
Chromosome Location	chr10:38300744-38300745
allele	A/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

TF binding
region (count:3)
CpG islands
(count:0)
Chromatin interactive
region (count:7)
LncRNA
region (count:0)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

(count:3 , 50 per page) page: 1

No.	Transcrition factor	Chromosome Location	Cell Line	Cell type	Cell Stage	Matched TF binding sites
1	POLR2A	chr10:38298879-38300784	MCF10A-Er-Src	breast:	n/a	n/a
2	ESRRA	chr10:38298733-38300951	GM12878	blood:	n/a	chr10:38299732-38299745
3	MXI1	chr10:38298880-38300934	SK-N-SH	brain:	n/a	n/a

No data

(count:7 , 50 per page) page: 1

No.	Distal block	Cell Line	Cell type
1	chr10:38298494..38301362-chr10:38382665..38385531,3	K562	blood:
2	chr10:38299411..38301761-chr10:38382405..38384673,2	MCF-7	breast:
3	chr10:38299349..38301423-chr10:38382665..38385531,5	K562	blood:
4	chr10:38262821..38267029-chr10:38297888..38300843,9	MCF-7	breast:
5	chr10:38298279..38301657-chr10:38381478..38384966,6	MCF-7	breast:
6	chr10:38264781..38267519-chr10:38298501..38300973,4	MCF-7	breast:
7	chr10:38264914..38266697-chr10:38299677..38301313,2	K562	blood:

No data

Variant related genes	Relation type
ZNF33A	TF binding region
ENSG00000175395	Chromatin interaction
ENSG00000226447	Chromatin interaction
ENSG00000075407	Chromatin interaction

Extended variants
information (count: 75 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:68)

rs_ID	r²[population]
rs10827830	1.00[EUR][1000 genomes]
rs10827834	1.00[YRI][hapmap];0.82[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs10827837	1.00[YRI][hapmap];0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs10827838	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs11011375	1.00[EUR][1000 genomes]
rs11011376	1.00[EUR][1000 genomes]
rs11011385	0.82[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs11011391	0.82[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs11011393	1.00[YRI][hapmap];0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs11011403	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs11011412	1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs11011415	1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs11011417	1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs11011428	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs11011429	1.00[EUR][1000 genomes]
rs11011430	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs11011437	1.00[YRI][hapmap];0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs11011438	0.94[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs11812927	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs11813723	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs11813932	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs11814622	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs11816307	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs11816860	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs11817782	1.00[YRI][hapmap];1.00[AFR][1000 genomes]
rs11818933	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs12240311	1.00[EUR][1000 genomes]
rs12241614	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs12242343	1.00[YRI][hapmap];0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs12245586	1.00[EUR][1000 genomes]
rs12248857	1.00[YRI][hapmap];0.82[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs12250395	1.00[EUR][1000 genomes]
rs12252754	0.88[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs12256181	1.00[EUR][1000 genomes]
rs12256794	0.82[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs12256916	1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs12257902	1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs12258024	1.00[YRI][hapmap];1.00[EUR][1000 genomes]
rs12258128	0.82[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs12260189	1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs12260310	0.82[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs12262814	0.82[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs12262927	1.00[EUR][1000 genomes]
rs12266728	1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs12267847	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs12269398	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs12770231	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs12773340	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs12779056	1.00[YRI][hapmap];0.82[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs2023432	1.00[EUR][1000 genomes]
rs34222428	1.00[EUR][1000 genomes]
rs34445730	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs34591573	1.00[EUR][1000 genomes]
rs34918037	1.00[EUR][1000 genomes]
rs34964888	1.00[EUR][1000 genomes]
rs35006520	1.00[EUR][1000 genomes]
rs35246660	1.00[EUR][1000 genomes]
rs35404142	1.00[EUR][1000 genomes]
rs57753536	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs60538050	0.82[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs71491210	1.00[EUR][1000 genomes]
rs71491212	1.00[EUR][1000 genomes]
rs71491214	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs71491223	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs71491227	1.00[EUR][1000 genomes]
rs71491228	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs71491229	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9651365	1.00[YRI][hapmap];0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:7 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv895030	chr10:37715737-38674609	Weak transcription Active TSS Enhancers Strong transcription ZNF genes & repeats Flanking Active TSS Bivalent/Poised TSS Genic enhancers Bivalent Enhancer Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	53 gene(s)	inside rSNPs	diseases
2	nsv1045684	chr10:37765361-38426204	Weak transcription ZNF genes & repeats Strong transcription Enhancers Flanking Active TSS Active TSS Genic enhancers Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	44 gene(s)	inside rSNPs	diseases
3	nsv540564	chr10:37765361-38426204	Weak transcription Enhancers ZNF genes & repeats Flanking Active TSS Active TSS Strong transcription Transcr. at gene 5' and 3' Genic enhancers Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	44 gene(s)	inside rSNPs	diseases
4	nsv1040704	chr10:37940024-38451917	Flanking Active TSS Enhancers ZNF genes & repeats Weak transcription Strong transcription Genic enhancers Active TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	40 gene(s)	inside rSNPs	diseases
5	nsv1051121	chr10:38155991-38426204	Weak transcription Active TSS ZNF genes & repeats Flanking Active TSS Strong transcription Enhancers Genic enhancers Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	26 gene(s)	inside rSNPs	diseases
6	nsv540565	chr10:38155991-38426204	Strong transcription Weak transcription ZNF genes & repeats Enhancers Flanking Active TSS Active TSS Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	26 gene(s)	inside rSNPs	diseases
7	nsv534122	chr10:38240258-38356008	ZNF genes & repeats Flanking Active TSS Strong transcription Enhancers Weak transcription Active TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Genic enhancers Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	20 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:127 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr10:38298400-38301000	Active TSS	Rectal Smooth Muscle	rectum
2	chr10:38298800-38300800	Active TSS	A549	lung
3	chr10:38298800-38300800	Active TSS	HepG2	liver
4	chr10:38298800-38301000	Active TSS	Foreskin Fibroblast Primary Cells skin01	Skin
5	chr10:38298800-38301000	Active TSS	HMEC	breast
6	chr10:38298800-38301400	Active TSS	K562	blood
7	chr10:38299000-38300800	Active TSS	ES-I3 Cell Line	embryonic stem cell
8	chr10:38299000-38300800	Active TSS	H1 Cell Line	embryonic stem cell
9	chr10:38299000-38300800	Active TSS	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
10	chr10:38299000-38300800	Active TSS	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
11	chr10:38299000-38300800	Active TSS	HUES6 Cell Line	embryonic stem cell
12	chr10:38299000-38300800	Active TSS	IMR90 fetal lung fibroblasts Cell Line	lung
13	chr10:38299000-38300800	Active TSS	Foreskin Fibroblast Primary Cells skin02	Skin
14	chr10:38299000-38300800	Active TSS	Foreskin Melanocyte Primary Cells skin01	Skin
15	chr10:38299000-38300800	Active TSS	Foreskin Melanocyte Primary Cells skin03	Skin
16	chr10:38299000-38300800	Active TSS	Brain Dorsolateral Prefrontal Cortex	brain
17	chr10:38299000-38300800	Active TSS	Colonic Mucosa	Colon
18	chr10:38299000-38300800	Active TSS	Fetal Muscle Trunk	muscle
19	chr10:38299000-38300800	Active TSS	Fetal Muscle Leg	muscle
20	chr10:38299000-38300800	Active TSS	GM12878-XiMat	blood
21	chr10:38299000-38300800	Active TSS	HSMM	muscle
22	chr10:38299000-38300800	Active TSS	HSMMtube	muscle
23	chr10:38299000-38300800	Active TSS	NHDF-Ad	bronchial
24	chr10:38299000-38300800	Active TSS	NHEK	skin
25	chr10:38299000-38301000	Active TSS	HUES64 Cell Line	embryonic stem cell
26	chr10:38299000-38301000	Active TSS	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
27	chr10:38299000-38301000	Active TSS	Foreskin Keratinocyte Primary Cells skin02	Skin
28	chr10:38299000-38301000	Active TSS	Fetal Intestine Small	intestine
29	chr10:38299000-38301200	Active TSS	HUES48 Cell Line	embryonic stem cell
30	chr10:38299000-38301200	Active TSS	Brain Germinal Matrix	brain
31	chr10:38299000-38301200	Active TSS	Fetal Intestine Large	intestine
32	chr10:38299000-38301200	Active TSS	Fetal Kidney	kidney
33	chr10:38299000-38301200	Active TSS	Pancreatic Islets	Pancreatic Islet
34	chr10:38299000-38301600	Active TSS	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
35	chr10:38299200-38300800	Active TSS	ES-WA7 Cell Line	embryonic stem cell
36	chr10:38299200-38300800	Active TSS	H9 Cell Line	embryonic stem cell
37	chr10:38299200-38300800	Active TSS	ES-UCSF4 Cell Line	embryonic stem cell
38	chr10:38299200-38300800	Active TSS	Right Ventricle	heart
39	chr10:38299600-38300800	Transcr. at gene 5' and 3'	Primary T helper 17 cells PMA-I stimulated	--
40	chr10:38300000-38300800	Flanking Active TSS	Primary B cells from cord blood	blood
41	chr10:38300000-38300800	Flanking Active TSS	Primary hematopoietic stem cells	blood
42	chr10:38300000-38300800	Active TSS	Right Atrium	heart
43	chr10:38300000-38301200	Flanking Active TSS	Primary hematopoietic stem cells G-CSF-mobilized Male	--
44	chr10:38300200-38300800	Flanking Active TSS	Primary T helper naive cells fromperipheralblood	blood
45	chr10:38300200-38300800	Flanking Active TSS	Primary T regulatory cells fromperipheralblood	blood
46	chr10:38300200-38300800	Flanking Active TSS	Adipose Nuclei	Adipose
47	chr10:38300200-38300800	Flanking Active TSS	Skeletal Muscle Female	skeletal muscle
48	chr10:38300200-38300800	Flanking Active TSS	Monocytes-CD14+_RO01746	blood
49	chr10:38300200-38301000	Flanking Active TSS	Primary neutrophils fromperipheralblood	blood
50	chr10:38300400-38300800	Flanking Active TSS	Breast Myoepithelial Primary Cells	Breast

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