Variant report

Variant	rs10152959
Chromosome Location	chr15:74500238-74500239
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	NFIC	chr15:74498896-74500428	ECC-1	luminal epithelium:	n/a	chr15:74499534-74499550
2	ZNF263	chr15:74499722-74503415	HEK293-T-REx	kidney:	n/a	chr15:74500444-74500453 chr15:74500769-74500778 chr15:74500441-74500450
3	CTCF	chr15:74500120-74500270	K562	blood:	n/a	n/a

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr15:74500084..74502169-chr15:74610783..74612337,2	K562	blood:

Variant related genes	Relation type
STRA6	TF binding region
ENSG00000140481	Chromatin interaction

Extended variants
information (count: 12 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:3)

rs_ID	r²[population]
rs11633768	1.00[CEU][hapmap];1.00[YRI][hapmap];0.92[AFR][1000 genomes];0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs11638831	0.91[AFR][1000 genomes];0.94[ASN][1000 genomes]
rs12915846	1.00[CEU][hapmap];0.96[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:9 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv833053	chr15:74360156-74555140	Flanking Bivalent TSS/Enh Bivalent Enhancer Weak transcription Enhancers Flanking Active TSS Genic enhancers Bivalent/Poised TSS Active TSS Strong transcription ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	17 gene(s)	inside rSNPs	diseases
2	nsv833054	chr15:74457643-74625283	Enhancers Weak transcription Flanking Active TSS Bivalent Enhancer Strong transcription Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Active TSS ZNF genes & repeats Genic enhancers Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	17 gene(s)	inside rSNPs	diseases
3	nsv904345	chr15:74458181-74526596	Active TSS Bivalent Enhancer Weak transcription Flanking Active TSS Enhancers Flanking Bivalent TSS/Enh Strong transcription Bivalent/Poised TSS Transcr. at gene 5' and 3' Genic enhancers ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases
4	nsv904346	chr15:74458181-74548773	Flanking Active TSS Enhancers Transcr. at gene 5' and 3' Weak transcription Flanking Bivalent TSS/Enh Bivalent Enhancer Active TSS Genic enhancers Bivalent/Poised TSS Strong transcription ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases
5	nsv904347	chr15:74462629-74537101	Flanking Active TSS Weak transcription Bivalent Enhancer Genic enhancers Enhancers Flanking Bivalent TSS/Enh Strong transcription Active TSS Transcr. at gene 5' and 3' Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases
6	nsv904348	chr15:74462629-74542686	Genic enhancers Enhancers Active TSS Bivalent Enhancer Bivalent/Poised TSS Flanking Active TSS Weak transcription Strong transcription Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases
7	nsv471253	chr15:74489207-74545148	Weak transcription Enhancers Bivalent/Poised TSS Bivalent Enhancer Flanking Active TSS Flanking Bivalent TSS/Enh Genic enhancers Strong transcription Active TSS Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases
8	nsv904349	chr15:74500105-74542686	Enhancers Flanking Bivalent TSS/Enh Weak transcription Flanking Active TSS Bivalent Enhancer Strong transcription ZNF genes & repeats Active TSS Bivalent/Poised TSS Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases
9	nsv904350	chr15:74500105-74548773	Enhancers Weak transcription Flanking Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Active TSS Strong transcription ZNF genes & repeats Bivalent/Poised TSS Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:49 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:74489200-74509600	Weak transcription	Gastric	stomach
2	chr15:74491000-74503200	Enhancers	H1 Derived Mesenchymal Stem Cells	ES cell derived
3	chr15:74492600-74503200	Enhancers	Fetal Muscle Leg	muscle
4	chr15:74494200-74501000	Weak transcription	HSMM	muscle
5	chr15:74496800-74500600	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
6	chr15:74496800-74501200	Enhancers	Spleen	Spleen
7	chr15:74496800-74501600	Weak transcription	A549	lung
8	chr15:74497000-74501200	Weak transcription	Placenta Amnion	Placenta Amnion
9	chr15:74497000-74505800	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
10	chr15:74497400-74501000	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
11	chr15:74497600-74501400	Weak transcription	Osteobl	bone
12	chr15:74497600-74502000	Enhancers	Primary hematopoietic stem cells short term culture	blood
13	chr15:74498000-74502600	Enhancers	Fetal Intestine Small	intestine
14	chr15:74498200-74500600	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
15	chr15:74498200-74501000	Weak transcription	Right Atrium	heart
16	chr15:74498200-74501600	Weak transcription	H9 Cell Line	embryonic stem cell
17	chr15:74498400-74500600	Enhancers	Hela-S3	cervix
18	chr15:74498400-74500800	Weak transcription	Primary hematopoietic stem cells	blood
19	chr15:74498400-74506000	Weak transcription	Left Ventricle	heart
20	chr15:74498800-74503200	Enhancers	Fetal Stomach	stomach
21	chr15:74499000-74500400	Enhancers	Fetal Lung	lung
22	chr15:74499000-74500600	Enhancers	Breast Myoepithelial Primary Cells	Breast
23	chr15:74499000-74501400	Enhancers	Fetal Kidney	kidney
24	chr15:74499000-74503400	Enhancers	NH-A	brain
25	chr15:74499200-74501000	Enhancers	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
26	chr15:74499200-74502400	Enhancers	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
27	chr15:74499200-74503600	Enhancers	Fetal Heart	heart
28	chr15:74499400-74501400	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
29	chr15:74499400-74502200	Bivalent Enhancer	Fetal Adrenal Gland	Adrenal Gland
30	chr15:74499600-74500400	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
31	chr15:74499600-74500800	Weak transcription	Fetal Intestine Large	intestine
32	chr15:74499600-74501200	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
33	chr15:74499800-74500800	Weak transcription	HUES6 Cell Line	embryonic stem cell
34	chr15:74499800-74500800	Weak transcription	HUES64 Cell Line	embryonic stem cell
35	chr15:74499800-74504400	Enhancers	GM12878-XiMat	blood
36	chr15:74500000-74500800	Bivalent Enhancer	H1 Cell Line	embryonic stem cell
37	chr15:74500000-74501600	Bivalent Enhancer	Fetal Muscle Trunk	muscle
38	chr15:74500000-74503000	Enhancers	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
39	chr15:74500200-74500400	ZNF genes & repeats	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
40	chr15:74500200-74500400	Weak transcription	iPS-18 Cell Line	embryonic stem cell
41	chr15:74500200-74500400	Bivalent Enhancer	Placenta	Placenta
42	chr15:74500200-74500800	Genic enhancers	iPS DF 19.11 Cell Line	embryonic stem cell
43	chr15:74500200-74500800	Flanking Active TSS	Fetal Thymus	thymus
44	chr15:74500200-74501000	Weak transcription	Fetal Brain Female	brain
45	chr15:74500200-74501200	Weak transcription	Cortex derived primary cultured neurospheres	brain
46	chr15:74500200-74501200	Flanking Bivalent TSS/Enh	HepG2	liver
47	chr15:74500200-74501400	Weak transcription	Fetal Brain Male	brain
48	chr15:74500200-74503200	Enhancers	ES-UCSF4 Cell Line	embryonic stem cell
49	chr15:74500200-74506000	Weak transcription	Brain Germinal Matrix	brain

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