Variant report

Variant	rs7755573
Chromosome Location	chr6:56405725-56405726
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	FOXA2	chr6:56405694-56406778	HepG2	liver:	n/a	chr6:56406690-56406702 chr6:56406384-56406396 chr6:56406694-56406706
2	MBD4	chr6:56405542-56406450	HepG2	liver:	n/a	n/a
3	TBL1XR1	chr6:56405688-56405793	K562	blood:	n/a	n/a
4	CTCF	chr6:56405600-56405750	NHDF-neo	bronchial:	n/a	n/a
5	CTCF	chr6:56405580-56405730	HPAF	blood vessel:	n/a	n/a
6	RAD21	chr6:56405714-56405904	A549	lung:	n/a	n/a
7	TEAD4	chr6:56405644-56406531	HepG2	liver:	n/a	n/a
8	EP300	chr6:56405632-56406566	HepG2	liver:	n/a	chr6:56405918-56405932 chr6:56406504-56406518 chr6:56405908-56405922
9	MXI1	chr6:56405716-56406316	HepG2	liver:	n/a	n/a
10	CTCF	chr6:56405680-56405830	BE2_C	brain:	n/a	n/a
11	CTCF	chr6:56405640-56405790	GM12864	blood:	n/a	n/a
12	POLR2A	chr6:56405509-56408138	HepG2	liver:	n/a	n/a
13	IRF1	chr6:56405713-56406295	K562	blood:	n/a	chr6:56405906-56405919 chr6:56405906-56405918 chr6:56405906-56405918 chr6:56405907-56405917 chr6:56405970-56405984 chr6:56405906-56405917 chr6:56405907-56405921 chr6:56405906-56405920 chr6:56405901-56405918 chr6:56405906-56405919
14	MYBL2	chr6:56405703-56406621	HepG2	liver:	n/a	n/a
15	MYBL2	chr6:56405567-56406432	HepG2	liver:	n/a	n/a
16	FOXA1	chr6:56405647-56407013	HepG2	liver:	n/a	chr6:56406890-56406902 chr6:56406690-56406702 chr6:56406384-56406396 chr6:56406694-56406706
17	FOXA1	chr6:56405648-56406563	HepG2	liver:	n/a	chr6:56406384-56406396
18	NFIC	chr6:56405687-56406693	HepG2	liver:	n/a	n/a
19	MXI1	chr6:56404390-56408372	SK-N-SH	brain:	n/a	n/a
20	CREB1	chr6:56405700-56406582	HepG2	liver:	n/a	n/a
21	CREB1	chr6:56405713-56406577	HepG2	liver:	n/a	n/a
22	GATA3	chr6:56405676-56406618	SK-N-SH	brain:	n/a	chr6:56406410-56406420 chr6:56406410-56406417 chr6:56406410-56406417 chr6:56406405-56406421 chr6:56406408-56406418 chr6:56406410-56406417 chr6:56406408-56406417 chr6:56406403-56406424

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr6:56336959..56338872-chr6:56404795..56407459,2	K562	blood:

Variant related genes	Relation type
DST	TF binding region
ENSG00000151914	Chromatin interaction

Extended variants
information (count: 90 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:85)

rs_ID	r²[population]
rs11753813	0.81[ASN][1000 genomes]
rs11756977	0.90[AMR][1000 genomes]
rs11759493	0.85[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs11961668	0.83[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs12527139	0.91[AMR][1000 genomes];0.97[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs13194746	0.88[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs13204556	0.85[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs13219448	0.97[AMR][1000 genomes];0.93[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs1359068	0.84[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs1359070	0.84[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs1535610	0.80[ASN][1000 genomes]
rs1535612	0.82[ASN][1000 genomes]
rs16887974	0.88[AMR][1000 genomes];0.81[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs2064591	0.81[EUR][1000 genomes]
rs2273974	0.85[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs2397226	0.83[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs34954984	0.85[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs35671304	0.84[AMR][1000 genomes];0.84[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs35926142	0.84[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs4130060	0.89[AMR][1000 genomes];0.96[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs4143827	0.85[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs4143828	0.91[AMR][1000 genomes];0.97[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs4236139	0.82[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs4236140	0.95[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs4236141	0.87[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs4236142	0.88[AMR][1000 genomes];0.87[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4236143	0.91[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4236144	0.93[AMR][1000 genomes];0.97[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs4236145	0.96[AMR][1000 genomes];0.97[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs4283892	0.85[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs4329120	0.85[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs4331988	0.85[EUR][1000 genomes]
rs4346846	0.85[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs4454141	0.85[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs4466244	0.85[AMR][1000 genomes];0.89[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4472350	0.85[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs4473850	0.85[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs4499917	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs4544910	0.83[AMR][1000 genomes];0.84[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs45486696	0.85[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs4712132	0.97[AMR][1000 genomes];0.97[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs4712133	0.90[AMR][1000 genomes];0.83[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs4715625	0.83[AMR][1000 genomes];0.84[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs4715626	0.83[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs4715627	0.85[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs4715628	0.85[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs4715629	0.88[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs4715630	0.91[AMR][1000 genomes];0.95[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs4715631	0.90[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs6459163	0.84[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs6906792	0.85[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs6907917	0.97[AMR][1000 genomes];0.94[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs6913572	0.85[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs6914184	0.85[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs6919608	0.85[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs6922770	0.88[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs6939305	1.00[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs721475	0.81[ASN][1000 genomes]
rs72877350	0.85[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs7741295	0.91[AMR][1000 genomes];0.96[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs7743011	0.83[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs7746753	0.84[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs7755361	0.85[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs7758054	0.91[AMR][1000 genomes];0.97[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs7759875	0.88[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs7760640	0.88[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs7760695	0.97[AMR][1000 genomes];0.97[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs7761281	1.00[AMR][1000 genomes];0.94[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs7762629	0.91[AMR][1000 genomes];0.94[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs9296848	0.85[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs9296849	0.83[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs9296850	1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs9349826	0.83[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs9357921	0.85[AMR][1000 genomes];0.85[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs9357922	0.97[AMR][1000 genomes];0.94[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs9370535	0.85[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs9382635	0.80[ASN][1000 genomes]
rs9396214	0.85[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs9396215	0.85[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs9396218	0.80[ASN][1000 genomes]
rs9464389	0.89[AMR][1000 genomes];0.96[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs9475709	0.82[ASN][1000 genomes]
rs9475713	0.85[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs9475714	0.85[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs9475716	0.88[AMR][1000 genomes];0.93[EUR][1000 genomes];0.93[ASN][1000 genomes]

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	nsv491933	chr6:56177722-57171010	Active TSS Enhancers Strong transcription Weak transcription Genic enhancers Flanking Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	51 gene(s)	inside rSNPs	diseases
2	nsv830666	chr6:56243743-56419599	Genic enhancers Weak transcription Strong transcription Enhancers ZNF genes & repeats Flanking Active TSS Active TSS Transcr. at gene 5' and 3' Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	9 gene(s)	inside rSNPs	diseases
3	nsv885912	chr6:56327849-56458836	Enhancers Weak transcription Strong transcription Active TSS Genic enhancers Flanking Active TSS 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	6 gene(s)	inside rSNPs	diseases
4	nsv1016868	chr6:56376165-56417631	Flanking Active TSS Weak transcription Strong transcription Active TSS Genic enhancers Enhancers ZNF genes & repeats Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region	6 gene(s)	inside rSNPs	diseases
5	nsv934026	chr6:56382056-57184218	Flanking Bivalent TSS/Enh Strong transcription Weak transcription Enhancers Transcr. at gene 5' and 3' Flanking Active TSS Genic enhancers Bivalent/Poised TSS Active TSS ZNF genes & repeats Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	49 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:107 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:56341800-56407400	Weak transcription	Spleen	Spleen
2	chr6:56376400-56407200	Weak transcription	Gastric	stomach
3	chr6:56392400-56406200	Weak transcription	H9 Cell Line	embryonic stem cell
4	chr6:56397200-56406600	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
5	chr6:56400200-56405800	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
6	chr6:56400400-56407000	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
7	chr6:56401600-56408400	Active TSS	Stomach Smooth Muscle	stomach
8	chr6:56402600-56407200	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
9	chr6:56402800-56408000	Active TSS	Colon Smooth Muscle	Colon
10	chr6:56403000-56406000	Active TSS	Fetal Lung	lung
11	chr6:56403000-56406000	Weak transcription	Sigmoid Colon	Sigmoid Colon
12	chr6:56403000-56407200	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
13	chr6:56403000-56408000	Active TSS	Rectal Smooth Muscle	rectum
14	chr6:56403200-56407200	Flanking Active TSS	HUVEC	blood vessel
15	chr6:56403200-56408000	Active TSS	Fetal Stomach	stomach
16	chr6:56403200-56408200	Active TSS	Aorta	Aorta
17	chr6:56403200-56408200	Active TSS	Ovary	ovary
18	chr6:56403600-56405800	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Female	--
19	chr6:56403800-56406800	Flanking Active TSS	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
20	chr6:56403800-56407000	Flanking Active TSS	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
21	chr6:56403800-56407000	Flanking Active TSS	Adipose Nuclei	Adipose
22	chr6:56403800-56407400	Flanking Active TSS	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
23	chr6:56403800-56408000	Active TSS	IMR90 fetal lung fibroblasts Cell Line	lung
24	chr6:56404000-56406400	Enhancers	iPS-18 Cell Line	embryonic stem cell
25	chr6:56404000-56406600	Enhancers	Fetal Heart	heart
26	chr6:56404000-56406600	Active TSS	Rectal Mucosa Donor 29	rectum
27	chr6:56404000-56407200	Flanking Active TSS	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
28	chr6:56404200-56406000	Enhancers	iPS-15b Cell Line	embryonic stem cell
29	chr6:56404200-56406200	Enhancers	iPS-20b Cell Line	embryonic stem cell
30	chr6:56404200-56406600	Flanking Active TSS	HMEC	breast
31	chr6:56404200-56406800	Flanking Active TSS	H9 Derived Neuron Cultured Cells	ES cell derived
32	chr6:56404200-56407000	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
33	chr6:56404200-56408200	Active TSS	Right Atrium	heart
34	chr6:56404400-56405800	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
35	chr6:56404400-56405800	Enhancers	Thymus	Thymus
36	chr6:56404400-56406600	Enhancers	HUES64 Cell Line	embryonic stem cell
37	chr6:56404400-56406800	Flanking Active TSS	Duodenum Mucosa	Duodenum
38	chr6:56404600-56406200	Enhancers	HUES48 Cell Line	embryonic stem cell
39	chr6:56404600-56406400	Enhancers	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
40	chr6:56404600-56406600	Flanking Active TSS	GM12878-XiMat	blood
41	chr6:56404600-56406800	Enhancers	Monocytes-CD14+_RO01746	blood
42	chr6:56404600-56406800	Flanking Active TSS	NHEK	skin
43	chr6:56404600-56407000	Flanking Active TSS	Brain Hippocampus Middle	brain
44	chr6:56404600-56408400	Flanking Active TSS	Primary hematopoietic stem cells G-CSF-mobilized Male	--
45	chr6:56404800-56407200	Enhancers	Primary monocytes fromperipheralblood	blood
46	chr6:56404800-56407600	Flanking Active TSS	Primary hematopoietic stem cells	blood
47	chr6:56405000-56406000	Active TSS	Colonic Mucosa	Colon
48	chr6:56405000-56406000	Flanking Active TSS	Right Ventricle	heart
49	chr6:56405000-56406200	Active TSS	Pancreatic Islets	Pancreatic Islet
50	chr6:56405000-56406600	Flanking Active TSS	Hela-S3	cervix

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links