Variant report

Variant	rs61896957
Chromosome Location	chr11:3830078-3830079
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

TF binding
region (count:47)
CpG islands
(count:0)
Chromatin interactive
region (count:7)
LncRNA
region (count:0)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

(count:47 , 50 per page) page: 1

No.	Transcrition factor	Chromosome Location	Cell Line	Cell type	Cell Stage	Matched TF binding sites
1	POLR2A	chr11:3829170-3830159	HepG2	liver:	n/a	n/a
2	CHD2	chr11:3829160-3830082	Hela-S3	cervix:	n/a	n/a
3	TBP	chr11:3830017-3830546	K562	blood:	n/a	n/a
4	CTCF	chr11:3829940-3830090	GM12866	blood:	n/a	chr11:3829946-3829959
5	MAZ	chr11:3829713-3830717	HepG2	liver:	n/a	n/a
6	POLR2A	chr11:3829436-3830081	PFSK-1	brain:	n/a	n/a
7	MXI1	chr11:3828840-3831055	SK-N-SH	brain:	n/a	n/a
8	POLR2A	chr11:3829116-3830148	Hela-S3	cervix:	n/a	n/a
9	CTCF	chr11:3829980-3830130	BJ	skin:	n/a	n/a
10	SIN3AK20	chr11:3829735-3830198	H1-hESC	embryonic stem cell:	n/a	n/a
11	MAZ	chr11:3829040-3830154	K562	blood:	n/a	n/a
12	MAX	chr11:3829750-3830235	ECC-1	luminal epithelium:	n/a	n/a
13	HEY1	chr11:3829436-3830095	HepG2	liver:	n/a	n/a
14	ZBTB7A	chr11:3829527-3830097	K562	blood:	n/a	n/a
15	CTCF	chr11:3828847-3831006	SK-N-SH	brain:	n/a	chr11:3829233-3829251 chr11:3829946-3829959
16	MAX	chr11:3829091-3830179	K562	blood:	n/a	n/a
17	SIN3A	chr11:3829071-3830154	H1-hESC	embryonic stem cell:	n/a	n/a
18	POLR2A	chr11:3829092-3830177	K562	blood:	n/a	n/a
19	CTCF	chr11:3830060-3830210	HCPEpiC	choroid plexus:	n/a	n/a
20	POLR2A	chr11:3829470-3830081	GM18951	blood:	n/a	n/a
21	CTCF	chr11:3829960-3830110	GM12875	blood:	n/a	n/a
22	MAX	chr11:3829006-3830808	A549	lung:	n/a	chr11:3830582-3830592
23	POLR2A	chr11:3829130-3830108	ECC-1	luminal epithelium:	n/a	n/a
24	POLR2A	chr11:3829302-3830162	SK-N-MC	brain:	n/a	n/a
25	ZBTB7A	chr11:3829083-3830091	ECC-1	luminal epithelium:	n/a	n/a
26	POLR2A	chr11:3828827-3830232	H1-hESC	embryonic stem cell:	n/a	n/a
27	HDAC2	chr11:3829722-3830098	K562	blood:	n/a	n/a
28	MAZ	chr11:3829131-3830118	Hela-S3	cervix:	n/a	n/a
29	POLR2A	chr11:3829761-3830096	H1-hESC	embryonic stem cell:	n/a	n/a
30	MAX	chr11:3829027-3830158	ECC-1	luminal epithelium:	n/a	n/a
31	HMGN3	chr11:3829632-3830081	K562	blood:	n/a	n/a
32	MAX	chr11:3829151-3830095	H1-hESC	embryonic stem cell:	n/a	n/a
33	JUN	chr11:3829967-3830115	H1-hESC	embryonic stem cell:	n/a	n/a
34	CTCF	chr11:3829974-3830967	A549	lung:	n/a	n/a
35	POLR2A	chr11:3829401-3830129	H1-hESC	embryonic stem cell:	n/a	n/a
36	RCOR1	chr11:3830029-3830582	K562	blood:	n/a	n/a
37	CTCF	chr11:3829960-3830110	GM12873	blood:	n/a	n/a
38	TCF12	chr11:3829956-3830822	A549	lung:	n/a	n/a
39	ZBTB7A	chr11:3829033-3830171	ECC-1	luminal epithelium:	n/a	n/a
40	ELF1	chr11:3829520-3830199	GM12878	blood:	n/a	n/a
41	POLR2A	chr11:3829154-3830314	PANC-1	pancreas:	n/a	n/a
42	RAD21	chr11:3830020-3830828	HCT-116	colon:	n/a	n/a
43	TAF1	chr11:3829232-3830156	ECC-1	luminal epithelium:	n/a	n/a
44	POLR2A	chr11:3829544-3830092	GM12892	blood:	n/a	n/a
45	SIN3AK20	chr11:3829074-3830130	PANC-1	pancreas:	n/a	n/a
46	POLR2A	chr11:3828874-3830101	PANC-1	pancreas:	n/a	n/a
47	POLR2A	chr11:3829157-3830090	Raji	blood:	n/a	n/a

No data

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

No.	Distal block	Cell Line	Cell type
1	chr11:3828900..3835031-chr11:3840756..3847684,8	K562	blood:
2	chr11:3829046..3832201-chr11:3860687..3864518,3	MCF-7	breast:
3	chr11:3827764..3831807-chr11:3860648..3864124,7	K562	blood:
4	chr11:3816139..3821205-chr11:3826361..3831544,11	MCF-7	breast:
5	chr11:3829597..3830296-chr11:3845729..3846607,3	K562	blood:
6	chr11:3829231..3830814-chr11:4115429..4117638,2	K562	blood:
7	chr11:3829786..3831602-chr11:3876105..3877704,2	K562	blood:

No data

Variant related genes	Relation type
PGAP2	TF binding region
ENSG00000148985	Chromatin interaction
ENSG00000110713	Chromatin interaction
ENSG00000167325	Chromatin interaction
ENSG00000177105	Chromatin interaction
ENSG00000167323	Chromatin interaction
ENSG00000228661	Chromatin interaction
ENSG00000263421	Chromatin interaction

Extended variants
information (count: 46 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:37)

rs_ID	r²[population]
rs1049388	1.00[ASN][1000 genomes]
rs11029983	1.00[ASN][1000 genomes]
rs11030043	1.00[ASN][1000 genomes]
rs11030044	1.00[ASN][1000 genomes]
rs11030055	1.00[ASN][1000 genomes]
rs11030173	1.00[ASN][1000 genomes]
rs11600857	1.00[ASN][1000 genomes]
rs11606318	1.00[ASN][1000 genomes]
rs11606483	1.00[ASN][1000 genomes]
rs17173882	1.00[ASN][1000 genomes]
rs17191448	1.00[ASN][1000 genomes]
rs17276405	1.00[ASN][1000 genomes]
rs17276453	1.00[ASN][1000 genomes]
rs4910577	1.00[ASN][1000 genomes]
rs4910846	1.00[ASN][1000 genomes]
rs4910852	1.00[ASN][1000 genomes]
rs4910856	1.00[ASN][1000 genomes]
rs4910857	1.00[ASN][1000 genomes]
rs61896929	1.00[ASN][1000 genomes]
rs61896930	1.00[ASN][1000 genomes]
rs61896931	1.00[ASN][1000 genomes]
rs61896953	1.00[ASN][1000 genomes]
rs61896954	1.00[ASN][1000 genomes]
rs61896956	1.00[ASN][1000 genomes]
rs61896958	1.00[ASN][1000 genomes]
rs61896959	1.00[ASN][1000 genomes]
rs61899361	1.00[ASN][1000 genomes]
rs61899362	1.00[ASN][1000 genomes]
rs61899363	1.00[ASN][1000 genomes]
rs61899392	1.00[ASN][1000 genomes]
rs61899393	1.00[ASN][1000 genomes]
rs6578414	1.00[ASN][1000 genomes]
rs7101788	1.00[ASN][1000 genomes]
rs72844340	1.00[ASN][1000 genomes]
rs72844341	1.00[ASN][1000 genomes]
rs73430467	1.00[ASN][1000 genomes]
rs74050940	1.00[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	nsv1049560	chr11:3678259-3980746	Weak transcription Genic enhancers Enhancers Flanking Active TSS Strong transcription Active TSS ZNF genes & repeats 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 miRNA target site	32 gene(s)	inside rSNPs	diseases
2	nsv540907	chr11:3678259-3980746	Weak transcription Active TSS Enhancers Genic enhancers Strong transcription Flanking Active TSS Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	32 gene(s)	inside rSNPs	diseases
3	nsv1052744	chr11:3739162-4017601	Weak transcription Enhancers Active TSS Flanking Active TSS Strong transcription Genic enhancers ZNF genes & repeats Bivalent Enhancer Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	29 gene(s)	inside rSNPs	diseases
4	nsv1047025	chr11:3750969-4017601	Strong transcription Enhancers Weak transcription Flanking Active TSS Active TSS Genic enhancers Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	28 gene(s)	inside rSNPs	diseases
5	esv1803195	chr11:3806490-3924156	Enhancers Weak transcription Active TSS Flanking Active TSS Genic enhancers Strong transcription Bivalent Enhancer Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	24 gene(s)	inside rSNPs	diseases
6	nsv1046065	chr11:3808818-4049150	Active TSS Weak transcription Enhancers Genic enhancers Flanking Active TSS Strong transcription ZNF genes & repeats Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	29 gene(s)	inside rSNPs	diseases
7	nsv540909	chr11:3808818-4049150	Flanking Active TSS Weak transcription Strong transcription Enhancers Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Active TSS Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	29 gene(s)	inside rSNPs	diseases
8	nsv1038220	chr11:3818041-3860024	Transcr. at gene 5' and 3' Flanking Active TSS Weak transcription Enhancers Active TSS Strong transcription Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	14 gene(s)	inside rSNPs	diseases
9	nsv1044882	chr11:3828986-3860024	Weak transcription Flanking Active TSS Enhancers Strong transcription Genic enhancers Active TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	9 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	chr11:3828800-3830200	Active TSS	Fetal Kidney	kidney
2	chr11:3828800-3830600	Flanking Active TSS	Dnd41	blood
3	chr11:3829000-3830200	Active TSS	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
4	chr11:3829000-3830200	Active TSS	iPS-15b Cell Line	embryonic stem cell
5	chr11:3829000-3830200	Active TSS	iPS-18 Cell Line	embryonic stem cell
6	chr11:3829000-3830200	Active TSS	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
7	chr11:3829000-3830200	Active TSS	Primary T helper memory cells from peripheral blood 2	blood
8	chr11:3829000-3830200	Flanking Active TSS	Adipose Nuclei	Adipose
9	chr11:3829000-3830200	Active TSS	Brain Anterior Caudate	brain
10	chr11:3829000-3830200	Active TSS	Brain Cingulate Gyrus	brain
11	chr11:3829000-3830200	Active TSS	Brain Dorsolateral Prefrontal Cortex	brain
12	chr11:3829000-3830200	Active TSS	Brain Substantia Nigra	brain
13	chr11:3829000-3830200	Active TSS	A549	lung
14	chr11:3829000-3830400	Active TSS	H1 Cell Line	embryonic stem cell
15	chr11:3829000-3830400	Flanking Active TSS	Primary T helper cells fromperipheralblood	blood
16	chr11:3829000-3830400	Flanking Active TSS	Primary hematopoietic stem cells G-CSF-mobilized Female	--
17	chr11:3829000-3830400	Active TSS	Fetal Lung	lung
18	chr11:3829000-3830400	Flanking Active TSS	Stomach Smooth Muscle	stomach
19	chr11:3829000-3830600	Flanking Active TSS	Primary neutrophils fromperipheralblood	blood
20	chr11:3829000-3830600	Flanking Active TSS	Primary B cells from cord blood	blood
21	chr11:3829000-3830600	Flanking Active TSS	Primary hematopoietic stem cells	blood
22	chr11:3829000-3830600	Flanking Active TSS	Primary hematopoietic stem cells short term culture	blood
23	chr11:3829000-3830600	Flanking Active TSS	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
24	chr11:3829000-3830800	Active TSS	HUES48 Cell Line	embryonic stem cell
25	chr11:3829000-3830800	Active TSS	HUES64 Cell Line	embryonic stem cell
26	chr11:3829000-3830800	Active TSS	iPS-20b Cell Line	embryonic stem cell
27	chr11:3829200-3830200	Active TSS	ES-WA7 Cell Line	embryonic stem cell
28	chr11:3829200-3830200	Active TSS	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
29	chr11:3829200-3830200	Active TSS	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
30	chr11:3829200-3830200	Active TSS	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
31	chr11:3829200-3830200	Active TSS	iPS DF 6.9 Cell Line	embryonic stem cell
32	chr11:3829200-3830200	Active TSS	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
33	chr11:3829200-3830200	Active TSS	Primary T killer memory cells from peripheral blood	blood
34	chr11:3829200-3830200	Flanking Active TSS	Primary mononuclear cells fromperipheralblood	Blood
35	chr11:3829200-3830200	Active TSS	Aorta	Aorta
36	chr11:3829200-3830200	Active TSS	Fetal Intestine Small	intestine
37	chr11:3829200-3830200	Active TSS	Pancreatic Islets	Pancreatic Islet
38	chr11:3829200-3830200	Active TSS	Gastric	stomach
39	chr11:3829200-3830200	Active TSS	Lung	lung
40	chr11:3829200-3830200	Active TSS	Ovary	ovary
41	chr11:3829200-3830200	Active TSS	Placenta Amnion	Placenta Amnion
42	chr11:3829200-3830200	Active TSS	Rectal Mucosa Donor 31	rectum
43	chr11:3829200-3830200	Active TSS	Stomach Mucosa	stomach
44	chr11:3829200-3830200	Active TSS	Hela-S3	cervix
45	chr11:3829200-3830200	Active TSS	HSMM	muscle
46	chr11:3829200-3830200	Active TSS	K562	blood
47	chr11:3829200-3830200	Active TSS	NHDF-Ad	bronchial
48	chr11:3829200-3830400	Active TSS	ES-I3 Cell Line	embryonic stem cell
49	chr11:3829200-3830400	Active TSS	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
50	chr11:3829200-3830400	Active TSS	HUES6 Cell Line	embryonic stem cell

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links