Variant report

Variant	rs35036456
Chromosome Location	chr15:74492642-74492643
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	TCF7L2	chr15:74492602-74493793	Hela-S3	cervix:	n/a	n/a
2	MAX	chr15:74492613-74493813	Hela-S3	cervix:	n/a	chr15:74492902-74492911 chr15:74493646-74493656
3	BCL3	chr15:74492637-74493293	A549	lung:	n/a	chr15:74492969-74492978
4	NR3C1	chr15:74492594-74493219	A549	lung:	n/a	chr15:74492928-74492937 chr15:74492927-74492936
5	SMARCB1	chr15:74492604-74494571	Hela-S3	cervix:	n/a	n/a
6	CEBPB	chr15:74492570-74493235	MCF-7	breast:	n/a	n/a
7	EP300	chr15:74492620-74493076	MCF-7	breast:	n/a	n/a
8	TFAP2C	chr15:74492581-74495035	Hela-S3	cervix:	n/a	chr15:74493490-74493505 chr15:74492911-74492926
9	CEBPB	chr15:74492569-74494496	Hela-S3	cervix:	n/a	n/a
10	SMARCC1	chr15:74492611-74495990	Hela-S3	cervix:	n/a	n/a
11	SP1	chr15:74492615-74493319	A549	lung:	n/a	n/a
12	JUND	chr15:74492571-74493267	HCT-116	colon:	n/a	chr15:74492959-74492968 chr15:74492926-74492938 chr15:74492926-74492937 chr15:74492928-74492936
13	RCOR1	chr15:74492582-74494497	Hela-S3	cervix:	n/a	n/a
14	CEBPB	chr15:74492534-74493369	HCT-116	colon:	n/a	n/a
15	GTF2F1	chr15:74492627-74494466	Hela-S3	cervix:	n/a	n/a
16	EP300	chr15:74492553-74493256	A549	lung:	n/a	n/a
17	CEBPB	chr15:74492503-74493246	HCT-116	colon:	n/a	n/a
18	NR2F2	chr15:74492480-74493841	MCF-7	breast:	n/a	n/a
19	RXRA	chr15:74492629-74493307	SK-N-SH	brain:	n/a	chr15:74493146-74493162
20	BCL3	chr15:74492626-74493188	A549	lung:	n/a	chr15:74492969-74492978
21	RCOR1	chr15:74492521-74493556	IMR90	lung:	n/a	n/a
22	SIN3AK20	chr15:74492465-74494667	MCF-7	breast:	n/a	n/a
23	MAX	chr15:74492512-74493819	A549	lung:	n/a	chr15:74492902-74492911 chr15:74493646-74493656
24	MAX	chr15:74492526-74493591	A549	lung:	n/a	chr15:74492902-74492911
25	EP300	chr15:74492629-74493269	A549	lung:	n/a	n/a
26	TCF12	chr15:74492475-74493872	A549	lung:	n/a	n/a
27	FOSL2	chr15:74492492-74493364	A549	lung:	n/a	chr15:74492959-74492968 chr15:74492926-74492938 chr15:74492928-74492936
28	SMC3	chr15:74492634-74494453	Hela-S3	cervix:	n/a	n/a
29	CEBPB	chr15:74492558-74493198	MCF-7	breast:	n/a	n/a
30	GATA3	chr15:74492508-74493716	A549	lung:	n/a	chr15:74493692-74493702 chr15:74493037-74493045 chr15:74492926-74492935 chr15:74493694-74493701 chr15:74493152-74493161 chr15:74493692-74493701 chr15:74492929-74492938
31	MAX	chr15:74492513-74493733	MCF-7	breast:	n/a	chr15:74492902-74492911 chr15:74493646-74493656
32	TFAP2A	chr15:74492626-74495193	Hela-S3	cervix:	n/a	chr15:74494897-74494905 chr15:74494886-74494898 chr15:74494905-74494916 chr15:74494897-74494905 chr15:74495170-74495180 chr15:74494896-74494904 chr15:74494897-74494905 chr15:74493490-74493505 chr15:74494896-74494904 chr15:74493234-74493249 chr15:74494896-74494904 chr15:74494886-74494898
33	CEBPB	chr15:74492570-74493268	A549	lung:	n/a	n/a
34	FOSL2	chr15:74492621-74493207	MCF-7	breast:	n/a	chr15:74492959-74492968 chr15:74492926-74492938 chr15:74492928-74492936

No.	Distal block	Cell Line	Cell type
1	chr15:74491398..74493100-chr15:74498606..74500534,2	MCF-7	breast:
2	chr15:74478980..74480513-chr15:74491993..74494403,2	MCF-7	breast:
3	chr15:74483852..74487473-chr15:74489633..74493518,4	K562	blood:
4	chr15:74481853..74488513-chr15:74489689..74497281,13	MCF-7	breast:
5	chr15:74209119..74211492-chr15:74491566..74493612,2	MCF-7	breast:
6	chr15:74421502..74423343-chr15:74491775..74494417,2	MCF-7	breast:

Variant related genes	Relation type
STRA6	TF binding region
ENSG00000259264	TF binding region
ENSG00000248540	Chromatin interaction
ENSG00000137868	Chromatin interaction
ENSG00000167178	Chromatin interaction

Extended variants
information (count: 30 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:23)

rs_ID	r²[population]
rs11630924	0.90[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs11631509	0.90[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs11633687	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11639369	0.90[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs11857410	0.83[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs12905521	0.88[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12911581	0.90[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs12912258	0.90[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs12915891	0.86[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs34147822	0.90[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs34234753	0.88[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs34573746	0.90[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs34591452	0.88[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs351242	0.86[EUR][1000 genomes]
rs35255788	0.83[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs35917667	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62003660	0.90[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs62003661	0.90[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs72747610	0.88[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs733163	0.90[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs971755	0.90[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs971756	0.90[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs971757	0.90[AMR][1000 genomes];0.85[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	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

No data

Chromatin state (count:71 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:74466200-74492800	Weak transcription	iPS-15b Cell Line	embryonic stem cell
2	chr15:74469400-74493200	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
3	chr15:74470800-74492800	Weak transcription	H9 Cell Line	embryonic stem cell
4	chr15:74485400-74493000	Weak transcription	Fetal Thymus	thymus
5	chr15:74488000-74492800	Weak transcription	H1 Cell Line	embryonic stem cell
6	chr15:74488400-74492800	Weak transcription	Fetal Kidney	kidney
7	chr15:74489200-74492800	Weak transcription	Skeletal Muscle Female	skeletal muscle
8	chr15:74489200-74509600	Weak transcription	Gastric	stomach
9	chr15:74489400-74492800	Weak transcription	Lung	lung
10	chr15:74489400-74492800	Weak transcription	NHLF	lung
11	chr15:74489400-74499000	Weak transcription	Brain Anterior Caudate	brain
12	chr15:74489800-74492800	Weak transcription	Fetal Heart	heart
13	chr15:74490000-74492800	Weak transcription	HSMMtube	muscle
14	chr15:74490200-74493800	Weak transcription	Colonic Mucosa	Colon
15	chr15:74490600-74496200	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
16	chr15:74490800-74493000	Enhancers	NH-A	brain
17	chr15:74491000-74503200	Enhancers	H1 Derived Mesenchymal Stem Cells	ES cell derived
18	chr15:74491200-74492800	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
19	chr15:74491400-74494800	Enhancers	ES-UCSF4 Cell Line	embryonic stem cell
20	chr15:74491600-74492800	Weak transcription	iPS-18 Cell Line	embryonic stem cell
21	chr15:74491600-74494000	Weak transcription	Cortex derived primary cultured neurospheres	brain
22	chr15:74491600-74494000	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
23	chr15:74491600-74494200	Enhancers	Fetal Intestine Large	intestine
24	chr15:74491800-74492800	Weak transcription	HUES48 Cell Line	embryonic stem cell
25	chr15:74492000-74492800	Weak transcription	HUES64 Cell Line	embryonic stem cell
26	chr15:74492000-74493400	Genic enhancers	Fetal Intestine Small	intestine
27	chr15:74492000-74496800	Enhancers	Breast Myoepithelial Primary Cells	Breast
28	chr15:74492200-74492800	Enhancers	Foreskin Fibroblast Primary Cells skin02	Skin
29	chr15:74492400-74495000	Bivalent Enhancer	Fetal Muscle Trunk	muscle
30	chr15:74492600-74492800	Flanking Active TSS	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
31	chr15:74492600-74492800	Flanking Active TSS	Foreskin Fibroblast Primary Cells skin01	Skin
32	chr15:74492600-74493000	Enhancers	ES-WA7 Cell Line	embryonic stem cell
33	chr15:74492600-74493000	Enhancers	iPS-20b Cell Line	embryonic stem cell
34	chr15:74492600-74493000	Enhancers	Osteobl	bone
35	chr15:74492600-74493200	Genic enhancers	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
36	chr15:74492600-74493200	Enhancers	HUES6 Cell Line	embryonic stem cell
37	chr15:74492600-74493200	Bivalent Enhancer	Fetal Adrenal Gland	Adrenal Gland
38	chr15:74492600-74493200	Enhancers	Rectal Mucosa Donor 31	rectum
39	chr15:74492600-74493400	Enhancers	Skeletal Muscle Male	skeletal muscle
40	chr15:74492600-74493400	Enhancers	Stomach Smooth Muscle	stomach
41	chr15:74492600-74493800	Enhancers	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
42	chr15:74492600-74493800	Enhancers	Fetal Stomach	stomach
43	chr15:74492600-74494000	Enhancers	Left Ventricle	heart
44	chr15:74492600-74494200	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
45	chr15:74492600-74494200	Enhancers	Muscle Satellite Cultured Cells	--
46	chr15:74492600-74494200	Enhancers	Adipose Nuclei	Adipose
47	chr15:74492600-74494200	Enhancers	HSMM	muscle
48	chr15:74492600-74494400	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
49	chr15:74492600-74494600	Enhancers	Esophagus	oesophagus
50	chr15:74492600-74494600	Enhancers	Spleen	Spleen

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