Variant report

Variant	rs1994656
Chromosome Location	chr10:28035796-28035797
allele	C/T
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	CHD1	chr10:28035693-28035899	H1-hESC	embryonic stem cell:	n/a	n/a
2	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
3	SIN3A	chr10:28034402-28036216	H1-hESC	embryonic stem cell:	n/a	chr10:28034660-28034671
4	SUZ12	chr10:28031619-28036341	NT2-D1	testis:	n/a	n/a
5	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
6	YY1	chr10:28035064-28035914	H1-hESC	embryonic stem cell:	n/a	chr10:28035849-28035860 chr10:28035398-28035412
7	CTBP2	chr10:28029973-28035811	H1-hESC	embryonic stem cell:	n/a	n/a
8	MYC	chr10:28035574-28035820	H1-hESC	embryonic stem cell:	n/a	n/a

Variant related genes	Relation type
MKX	TF binding region

Extended variants
information (count: 10 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:7)

rs_ID	r²[population]
rs1907382	1.00[CEU][hapmap]
rs2253382	1.00[CEU][hapmap]
rs2451922	1.00[CEU][hapmap]
rs2637295	1.00[CEU][hapmap]
rs2637296	1.00[CEU][hapmap]
rs2637306	1.00[CEU][hapmap]
rs2637318	1.00[CEU][hapmap]

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:80 , 50 per page) page: 1 2

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	chr10:28030000-28036600	Bivalent/Poised TSS	ES-I3 Cell Line	embryonic stem cell
4	chr10:28030200-28036200	Bivalent Enhancer	Fetal Brain Male	brain
5	chr10:28030200-28036400	Bivalent/Poised TSS	iPS-15b Cell Line	embryonic stem cell
6	chr10:28030800-28035800	Active TSS	Aorta	Aorta
7	chr10:28031200-28035800	Flanking Bivalent TSS/Enh	Foreskin Fibroblast Primary Cells skin01	Skin
8	chr10:28031400-28035800	Flanking Bivalent TSS/Enh	Primary hematopoietic stem cells G-CSF-mobilized Male	--
9	chr10:28031400-28035800	Flanking Bivalent TSS/Enh	Ganglion Eminence derived primary cultured neurospheres	brain
10	chr10:28031800-28035800	Flanking Bivalent TSS/Enh	Fetal Muscle Leg	muscle
11	chr10:28032800-28035800	Bivalent Enhancer	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
12	chr10:28032800-28036000	Bivalent Enhancer	Fetal Thymus	thymus
13	chr10:28033000-28036000	Bivalent Enhancer	Fetal Adrenal Gland	Adrenal Gland
14	chr10:28033200-28035800	Bivalent Enhancer	Spleen	Spleen
15	chr10:28033600-28035800	Flanking Bivalent TSS/Enh	Fetal Muscle Trunk	muscle
16	chr10:28033800-28035800	Bivalent/Poised TSS	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
17	chr10:28033800-28035800	Bivalent Enhancer	Stomach Mucosa	stomach
18	chr10:28033800-28036000	Bivalent Enhancer	Primary monocytes fromperipheralblood	blood
19	chr10:28033800-28036000	Enhancers	Gastric	stomach
20	chr10:28034000-28035800	Bivalent/Poised TSS	Brain Dorsolateral Prefrontal Cortex	brain
21	chr10:28034000-28036000	Bivalent/Poised TSS	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
22	chr10:28034200-28036200	Bivalent/Poised TSS	iPS DF 6.9 Cell Line	embryonic stem cell
23	chr10:28034400-28035800	Bivalent/Poised TSS	H1 Cell Line	embryonic stem cell
24	chr10:28034600-28036200	Bivalent Enhancer	Primary T killer naive cells fromperipheralblood	blood
25	chr10:28034800-28035800	Flanking Bivalent TSS/Enh	Primary T cells from cord blood	blood
26	chr10:28034800-28036000	Flanking Bivalent TSS/Enh	Colon Smooth Muscle	Colon
27	chr10:28035000-28036200	Bivalent/Poised TSS	ES-WA7 Cell Line	embryonic stem cell
28	chr10:28035200-28035800	Bivalent Enhancer	Primary neutrophils fromperipheralblood	blood
29	chr10:28035200-28035800	Bivalent Enhancer	Primary hematopoietic stem cells short term culture	blood
30	chr10:28035200-28035800	Bivalent Enhancer	Foreskin Melanocyte Primary Cells skin01	Skin
31	chr10:28035200-28035800	Bivalent Enhancer	Foreskin Melanocyte Primary Cells skin03	Skin
32	chr10:28035200-28035800	Bivalent Enhancer	Brain Hippocampus Middle	brain
33	chr10:28035200-28035800	Bivalent/Poised TSS	Brain Substantia Nigra	brain
34	chr10:28035200-28035800	Bivalent Enhancer	Placenta Amnion	Placenta Amnion
35	chr10:28035200-28035800	Bivalent Enhancer	A549	lung
36	chr10:28035200-28036000	Flanking Bivalent TSS/Enh	iPS DF 19.11 Cell Line	embryonic stem cell
37	chr10:28035200-28036000	Bivalent Enhancer	Primary T regulatory cells fromperipheralblood	blood
38	chr10:28035200-28036000	Bivalent Enhancer	Left Ventricle	heart
39	chr10:28035200-28036200	Flanking Bivalent TSS/Enh	HUES6 Cell Line	embryonic stem cell
40	chr10:28035200-28036200	Bivalent Enhancer	Primary T helper memory cells from peripheral blood 2	blood
41	chr10:28035200-28036400	Flanking Bivalent TSS/Enh	HUES48 Cell Line	embryonic stem cell
42	chr10:28035400-28035800	Bivalent Enhancer	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
43	chr10:28035400-28035800	Flanking Bivalent TSS/Enh	ES-UCSF4 Cell Line	embryonic stem cell
44	chr10:28035400-28035800	Bivalent Enhancer	Brain Angular Gyrus	brain
45	chr10:28035400-28035800	Flanking Active TSS	Ovary	ovary
46	chr10:28035400-28035800	Flanking Bivalent TSS/Enh	Rectal Smooth Muscle	rectum
47	chr10:28035400-28035800	Flanking Active TSS	Stomach Smooth Muscle	stomach
48	chr10:28035400-28035800	Bivalent Enhancer	HUVEC	blood vessel
49	chr10:28035400-28036000	Bivalent Enhancer	Primary T cells fromperipheralblood	blood
50	chr10:28035400-28036000	Bivalent Enhancer	Cortex derived primary cultured neurospheres	brain

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links