Variant report

Variant	rs7258441
Chromosome Location	chr19:36606358-36606359
allele	G/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	SP2	chr19:36606027-36606547	HepG2	liver:	n/a	n/a
2	HEY1	chr19:36605473-36606959	HepG2	liver:	n/a	chr19:36605499-36605514
3	ELF1	chr19:36605016-36606976	A549	lung:	n/a	chr19:36605886-36605898
4	POLR2A	chr19:36605198-36607300	GM12878	blood:	n/a	n/a
5	POLR2A	chr19:36605518-36606915	GM19099	blood:	n/a	n/a
6	MYC	chr19:36605597-36606582	MCF-7	breast:	n/a	chr19:36605885-36605895 chr19:36605681-36605691 chr19:36605869-36605879
7	POLR2A	chr19:36605269-36606949	GM18505	blood:	n/a	n/a
8	MAZ	chr19:36605642-36606818	HepG2	liver:	n/a	chr19:36606791-36606801 chr19:36605885-36605895 chr19:36605681-36605691 chr19:36605869-36605879
9	ELF1	chr19:36605531-36607059	MCF-7	breast:	n/a	chr19:36605886-36605898
10	MAX	chr19:36605251-36606591	Hela-S3	cervix:	n/a	chr19:36605493-36605503 chr19:36605885-36605895 chr19:36605681-36605691 chr19:36605869-36605879
11	SIN3AK20	chr19:36606317-36606676	PANC-1	pancreas:	n/a	n/a
12	TCF12	chr19:36605547-36606758	ECC-1	luminal epithelium:	n/a	n/a
13	POLR2A	chr19:36605565-36606610	K562	blood:	n/a	n/a
14	GABPA	chr19:36605505-36606777	MCF-7	breast:	n/a	chr19:36606587-36606596 chr19:36606107-36606118 chr19:36606107-36606116 chr19:36606107-36606121 chr19:36606104-36606118 chr19:36606109-36606118
15	POLR2A	chr19:36606262-36606614	H1-hESC	embryonic stem cell:	n/a	n/a
16	BHLHE40	chr19:36605272-36607179	GM12878	blood:	n/a	n/a
17	E2F6	chr19:36604839-36606607	K562	blood:	n/a	chr19:36606020-36606034 chr19:36606361-36606370 chr19:36604856-36604865 chr19:36605210-36605219 chr19:36605884-36605893 chr19:36606587-36606596 chr19:36606108-36606117
18	MYC	chr19:36605620-36606458	K562	blood:	n/a	chr19:36605885-36605895 chr19:36605681-36605691 chr19:36605869-36605879
19	POLR2A	chr19:36605010-36607073	PANC-1	pancreas:	n/a	n/a
20	SIX5	chr19:36605235-36606624	A549	lung:	n/a	n/a
21	STAT1	chr19:36605541-36606854	GM12878	blood:	n/a	chr19:36606622-36606642 chr19:36606628-36606636 chr19:36606622-36606642 chr19:36606628-36606637 chr19:36606652-36606664 chr19:36606627-36606636 chr19:36606637-36606649
22	E2F6	chr19:36604990-36607379	A549	lung:	n/a	chr19:36606020-36606034 chr19:36606361-36606370 chr19:36605210-36605219 chr19:36605884-36605893 chr19:36606587-36606596 chr19:36606108-36606117
23	ATF3	chr19:36605049-36606612	A549	lung:	n/a	chr19:36605210-36605219 chr19:36606587-36606596
24	POLR2A	chr19:36604904-36606845	PFSK-1	brain:	n/a	n/a
25	MAX	chr19:36605424-36606750	K562	blood:	n/a	chr19:36605493-36605503 chr19:36605885-36605895 chr19:36605681-36605691 chr19:36605869-36605879
26	MAZ	chr19:36604752-36607281	IMR90	lung:	n/a	chr19:36606791-36606801 chr19:36605493-36605503 chr19:36605885-36605895 chr19:36605681-36605691 chr19:36605869-36605879
27	JUND	chr19:36606339-36606543	H1-hESC	embryonic stem cell:	n/a	n/a
28	ATF3	chr19:36605333-36606658	A549	lung:	n/a	chr19:36606587-36606596
29	E2F6	chr19:36604762-36606635	H1-hESC	embryonic stem cell:	n/a	chr19:36606020-36606034 chr19:36606361-36606370 chr19:36604856-36604865 chr19:36605210-36605219 chr19:36605884-36605893 chr19:36606587-36606596 chr19:36606108-36606117
30	TAF1	chr19:36605351-36607052	HepG2	liver:	n/a	n/a
31	POLR2A	chr19:36604905-36607077	MCF-7	breast:	n/a	n/a
32	ZBTB33	chr19:36605164-36606642	A549	lung:	n/a	n/a
33	POLR2A	chr19:36605255-36606778	MCF-7	breast:	n/a	n/a
34	EP300	chr19:36605776-36606460	HepG2	liver:	n/a	chr19:36605865-36605881
35	TAF1	chr19:36606219-36606598	K562	blood:	n/a	n/a
36	MAX	chr19:36604753-36607476	A549	lung:	n/a	chr19:36606791-36606801 chr19:36605493-36605503 chr19:36605885-36605895 chr19:36605681-36605691 chr19:36605869-36605879
37	RELA	chr19:36605569-36606885	GM12892	blood:	n/a	n/a
38	TAF1	chr19:36605484-36606616	H1-hESC	embryonic stem cell:	n/a	n/a
39	POLR2A	chr19:36605667-36606763	HepG2	liver:	n/a	n/a
40	POLR2A	chr19:36606336-36606587	HepG2	liver:	n/a	n/a
41	POLR2A	chr19:36605074-36606766	H1-neurons	neurons:	n/a	n/a
42	POLR2A	chr19:36605326-36606863	Raji	blood:	n/a	n/a
43	FOXP2	chr19:36605964-36606619	PFSK-1	brain:	n/a	n/a
44	NR2F2	chr19:36605655-36606533	K562	blood:	n/a	n/a
45	YY1	chr19:36606272-36606678	SK-N-SH_RA	brain:	n/a	chr19:36606651-36606662 chr19:36606587-36606596
46	POLR2A	chr19:36605505-36606928	GM18951	blood:	n/a	n/a
47	RELA	chr19:36605550-36606927	GM19099	blood:	n/a	n/a
48	RELA	chr19:36605548-36606635	GM10847	blood:	n/a	n/a
49	TBP	chr19:36605650-36606572	H1-hESC	embryonic stem cell:	n/a	n/a
50	CCNT2	chr19:36605635-36606863	K562	blood:	n/a	chr19:36606651-36606660 chr19:36606587-36606596 chr19:36606602-36606611

No.	Distal block	Cell Line	Cell type
1	chr1:11968008..11968799-chr19:36605992..36606766,2	Hela-S3	cervix:
2	chr19:36498267..36501775-chr19:36606279..36609989,4	MCF-7	breast:
3	chr19:36603757..36607457-chr19:36664359..36667558,3	MCF-7	breast:
4	chr19:36604314..36608037-chr19:36629557..36633745,12	MCF-7	breast:
5	chr1:94146477..94147235-chr19:36605467..36606382,2	Hela-S3	cervix:
6	chr13:111365280..111366051-chr19:36605506..36606391,2	Hela-S3	cervix:
7	chr19:36604785..36608680-chr19:36610341..36613498,5	K562	blood:
8	chr16:85784651..85786943-chr19:36604623..36606836,2	MCF-7	breast:
9	chr19:36543835..36550918-chr19:36603651..36608049,11	MCF-7	breast:
10	chr19:36604617..36608522-chr19:36628102..36632329,9	MCF-7	breast:
11	chr19:36604026..36607708-chr19:36630473..36633466,10	K562	blood:
12	chr19:36605972..36606861-chr21:33784747..33785392,2	Hela-S3	cervix:
13	chr19:36544216..36546740-chr19:36604520..36606743,4	K562	blood:
14	chr19:36604594..36608993-chr19:36628830..36633466,13	K562	blood:
15	chr19:36545240..36547330-chr19:36604696..36606743,2	K562	blood:

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-TBCB-1	chr19:36605955-36606453	NONHSAT065957

Variant related genes	Relation type
TBCB	TF binding region
POLR2I	TF binding region
ENSG00000153487	Chromatin interaction
ENSG00000075702	Chromatin interaction
ENSG00000181392	Chromatin interaction
ENSG00000267005	Chromatin interaction
ENSG00000137936	Chromatin interaction
ENSG00000126247	Chromatin interaction
ENSG00000134905	Chromatin interaction
ENSG00000199347	Chromatin interaction
ENSG00000161277	Chromatin interaction
ENSG00000166979	Chromatin interaction
ENSG00000154102	Chromatin interaction
ENSG00000105254	Chromatin interaction

Extended variants
information (count: 7 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:2)

rs_ID	r²[population]
rs8101244	1.00[YRI][hapmap]
rs8110206	1.00[YRI][hapmap]

Variant overlapped rSNPs/rCNVs (count:5 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	esv3526489	chr19:36306483-36741945	Enhancers Weak transcription Strong transcription Flanking Active TSS Bivalent/Poised TSS Active TSS Flanking Bivalent TSS/Enh Genic enhancers Bivalent Enhancer Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	114 gene(s)	inside rSNPs	diseases
2	esv3526490	chr19:36306483-36741945	Genic enhancers Weak transcription Strong transcription Flanking Active TSS Bivalent/Poised TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent Enhancer Enhancers Active TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	114 gene(s)	inside rSNPs	diseases
3	esv1831737	chr19:36324324-36690874	Weak transcription Strong transcription Active TSS Flanking Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Enhancers ZNF genes & repeats Bivalent/Poised TSS Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	103 gene(s)	inside rSNPs	diseases
4	nsv833815	chr19:36519803-36624936	Weak transcription Enhancers Flanking Active TSS Genic enhancers Active TSS Strong transcription Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS ZNF genes & repeats Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	38 gene(s)	inside rSNPs	diseases
5	esv2752541	chr19:36563057-36690874	Active TSS ZNF genes & repeats Weak transcription Strong transcription Enhancers Genic enhancers Flanking Active TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	53 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	chr19:36604000-36608000	Transcr. at gene 5' and 3'	Foreskin Fibroblast Primary Cells skin02	Skin
2	chr19:36604400-36607000	Active TSS	iPS-18 Cell Line	embryonic stem cell
3	chr19:36604400-36607200	Active TSS	ES-I3 Cell Line	embryonic stem cell
4	chr19:36604400-36607200	Active TSS	iPS-20b Cell Line	embryonic stem cell
5	chr19:36604400-36607400	Active TSS	H9 Cell Line	embryonic stem cell
6	chr19:36604400-36607400	Active TSS	HUES48 Cell Line	embryonic stem cell
7	chr19:36604600-36607000	Active TSS	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
8	chr19:36604600-36607000	Active TSS	Fetal Intestine Small	intestine
9	chr19:36604600-36607000	Active TSS	HSMMtube	muscle
10	chr19:36604600-36607200	Active TSS	HUES64 Cell Line	embryonic stem cell
11	chr19:36604600-36607200	Active TSS	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
12	chr19:36604600-36607200	Active TSS	Fetal Kidney	kidney
13	chr19:36604800-36607000	Active TSS	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
14	chr19:36604800-36607000	Active TSS	iPS DF 6.9 Cell Line	embryonic stem cell
15	chr19:36604800-36607000	Active TSS	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
16	chr19:36604800-36607000	Active TSS	Foreskin Keratinocyte Primary Cells skin03	Skin
17	chr19:36604800-36607000	Active TSS	Ovary	ovary
18	chr19:36604800-36607000	Active TSS	A549	lung
19	chr19:36604800-36607000	Active TSS	GM12878-XiMat	blood
20	chr19:36604800-36607200	Active TSS	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
21	chr19:36604800-36607200	Active TSS	iPS-15b Cell Line	embryonic stem cell
22	chr19:36604800-36607200	Active TSS	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
23	chr19:36604800-36607200	Active TSS	Pancreatic Islets	Pancreatic Islet
24	chr19:36604800-36607200	Active TSS	NHDF-Ad	bronchial
25	chr19:36604800-36607600	Active TSS	HUES6 Cell Line	embryonic stem cell
26	chr19:36605000-36606800	Active TSS	Fetal Intestine Large	intestine
27	chr19:36605000-36606800	Active TSS	NHEK	skin
28	chr19:36605000-36607000	Active TSS	Foreskin Melanocyte Primary Cells skin03	Skin
29	chr19:36605000-36607000	Active TSS	Colon Smooth Muscle	Colon
30	chr19:36605000-36607000	Active TSS	Stomach Mucosa	stomach
31	chr19:36605000-36607200	Active TSS	Aorta	Aorta
32	chr19:36605000-36607200	Active TSS	Small Intestine	intestine
33	chr19:36605200-36606800	Active TSS	ES-UCSF4 Cell Line	embryonic stem cell
34	chr19:36605200-36606800	Active TSS	Breast Myoepithelial Primary Cells	Breast
35	chr19:36605200-36606800	Active TSS	Primary T helper memory cells from peripheral blood 2	blood
36	chr19:36605200-36606800	Active TSS	Primary T killer memory cells from peripheral blood	blood
37	chr19:36605200-36606800	Active TSS	Brain Cingulate Gyrus	brain
38	chr19:36605200-36606800	Active TSS	Duodenum Smooth Muscle	Duodenum
39	chr19:36605200-36606800	Active TSS	Left Ventricle	heart
40	chr19:36605200-36606800	Active TSS	Hela-S3	cervix
41	chr19:36605200-36606800	Active TSS	Osteobl	bone
42	chr19:36605200-36607000	Active TSS	H1 Cell Line	embryonic stem cell
43	chr19:36605200-36607000	Active TSS	IMR90 fetal lung fibroblasts Cell Line	lung
44	chr19:36605200-36607000	Active TSS	Primary T helper naive cells from peripheral blood	blood
45	chr19:36605200-36607000	Active TSS	Muscle Satellite Cultured Cells	--
46	chr19:36605200-36607000	Active TSS	Foreskin Melanocyte Primary Cells skin01	Skin
47	chr19:36605200-36607000	Active TSS	Brain Anterior Caudate	brain
48	chr19:36605200-36607000	Active TSS	Brain Germinal Matrix	brain
49	chr19:36605200-36607000	Active TSS	Brain Inferior Temporal Lobe	brain
50	chr19:36605200-36607000	Active TSS	Brain Dorsolateral Prefrontal Cortex	brain

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links