Variant report

Variant	rs41267647
Chromosome Location	chr6:33382457-33382458
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

TF binding
region (count:64)
CpG islands
(count:0)
Chromatin interactive
region (count:15)
LncRNA
region (count:0)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

(count:64 , 50 per page) page: 1 2

No.	Transcrition factor	Chromosome Location	Cell Line	Cell type	Cell Stage	Matched TF binding sites
1	CTCF	chr6:33382421-33382674	SK-N-SH_RA	brain:	n/a	n/a
2	CTCF	chr6:33382453-33382689	K562	blood:	n/a	n/a
3	CTCF	chr6:33382409-33382751	HepG2	liver:	n/a	n/a
4	POLR2A	chr6:33379963-33384071	SK-N-MC	brain:	n/a	n/a
5	CTCF	chr6:33382420-33382570	WI-38	lung:	n/a	n/a
6	CTCF	chr6:33382440-33382590	HEEpiC	esophagus:	n/a	n/a
7	CTCF	chr6:33382400-33382550	HFF-Myc	foreskin:	n/a	n/a
8	CTCF	chr6:33381934-33382856	A549	lung:	n/a	n/a
9	RAD21	chr6:33382453-33382699	SK-N-SH_RA	brain:	n/a	n/a
10	POLR2A	chr6:33379970-33384148	GM12878	blood:	n/a	n/a
11	CTCF	chr6:33382374-33382722	H1-hESC	embryonic stem cell:	n/a	n/a
12	POLR2A	chr6:33380035-33383888	Hela-S3	cervix:	n/a	n/a
13	RCOR1	chr6:33382295-33382689	K562	blood:	n/a	n/a
14	CTCF	chr6:33382440-33382590	AG04450	lung:	n/a	n/a
15	FOXM1	chr6:33382361-33382745	GM12878	blood:	n/a	n/a
16	CTCF	chr6:33382440-33382590	NHDF-neo	bronchial:	n/a	n/a
17	CTCFL	chr6:33382442-33382687	K562	blood:	n/a	n/a
18	SMC3	chr6:33382432-33382621	GM12878	blood:	n/a	n/a
19	POLR2A	chr6:33381640-33382716	K562	blood:	n/a	n/a
20	CTCF	chr6:33382440-33382590	GM12872	blood:	n/a	n/a
21	POLR2A	chr6:33380137-33384099	PFSK-1	brain:	n/a	n/a
22	CTCF	chr6:33382440-33382590	NHEK	skin:	n/a	n/a
23	POLR2A	chr6:33382391-33382490	H1-hESC	embryonic stem cell:	n/a	n/a
24	POLR2A	chr6:33382371-33382570	HepG2	liver:	n/a	n/a
25	CTCF	chr6:33382391-33382754	K562	blood:	n/a	n/a
26	YY1	chr6:33382413-33382640	GM12878	blood:	n/a	chr6:33382544-33382561
27	POLR2A	chr6:33380085-33387208	IMR90	lung:	n/a	n/a
28	RAD21	chr6:33382435-33382679	H1-hESC	embryonic stem cell:	n/a	n/a
29	MAX	chr6:33382454-33382632	K562	blood:	n/a	n/a
30	MAX	chr6:33382344-33382704	K562	blood:	n/a	n/a
31	POLR2A	chr6:33380133-33382472	GM12878	blood:	n/a	n/a
32	POLR2A	chr6:33382146-33382676	K562	blood:	n/a	n/a
33	CTCF	chr6:33382420-33382570	GM12864	blood:	n/a	n/a
34	CTCF	chr6:33382253-33383054	SK-N-SH	brain:	n/a	n/a
35	CTCF	chr6:33382433-33382757	H1-hESC	embryonic stem cell:	n/a	n/a
36	CTCF	chr6:33382065-33382756	IMR90	lung:	n/a	n/a
37	MAZ	chr6:33382428-33382683	K562	blood:	n/a	n/a
38	POLR2A	chr6:33381430-33382728	K562	blood:	n/a	n/a
39	PAX5	chr6:33382368-33382662	GM12878	blood:	n/a	chr6:33382484-33382493
40	POLR2A	chr6:33380030-33382674	HepG2	liver:	n/a	n/a
41	ZNF263	chr6:33382257-33383098	HEK293-T-REx	kidney:	n/a	n/a
42	POLR2A	chr6:33380060-33386533	K562	blood:	n/a	n/a
43	POLR2A	chr6:33381629-33383398	K562	blood:	n/a	n/a
44	CTCF	chr6:33382329-33382869	K562	blood:	n/a	n/a
45	POLR2A	chr6:33382375-33382494	Hela-S3	cervix:	n/a	n/a
46	CTCF	chr6:33382361-33382760	K562	blood:	n/a	n/a
47	CTCF	chr6:33382396-33382696	K562	blood:	n/a	n/a
48	POLR2A	chr6:33380456-33382511	HepG2	liver:	n/a	n/a
49	CTCF	chr6:33382440-33382590	HA-sp	spinal cord:	n/a	n/a
50	IRF1	chr6:33382415-33382617	K562	blood:	n/a	n/a

No data

(count:15 , 50 per page) page: 1

No.	Distal block	Cell Line	Cell type
1	chr6:33279489..33293095-chr6:33375317..33398824,56	K562	blood:
2	chr11:57091732..57092432-chr6:33382453..33383005,2	Hela-S3	cervix:
3	chr6:33263818..33265650-chr6:33381990..33383915,2	K562	blood:
4	chr6:33241747..33248128-chr6:33380775..33386072,13	K562	blood:
5	chr6:33280795..33292485-chr6:33374786..33387605,31	K562	blood:
6	chr6:33381847..33384907-chr6:33420236..33423106,3	MCF-7	breast:
7	chr6:33264150..33266780-chr6:33381466..33383490,2	K562	blood:
8	chr6:33242345..33244145-chr6:33381102..33383050,3	MCF-7	breast:
9	chr6:33244680..33251060-chr6:33375427..33382644,12	MCF-7	breast:
10	chr6:33248031..33250805-chr6:33381162..33383303,2	MCF-7	breast:
11	chr6:33242542..33249529-chr6:33381747..33388277,18	K562	blood:
12	chr6:33381203..33384118-chr6:33546265..33549089,2	K562	blood:
13	chr6:33371627..33375942-chr6:33381284..33387543,6	K562	blood:
14	chr6:33238401..33240913-chr6:33381042..33383923,3	MCF-7	breast:
15	chr6:33237802..33241730-chr6:33382199..33389112,10	K562	blood:

No data

Variant related genes	Relation type
PHF1	TF binding region
ENSG00000235863	Chromatin interaction
ENSG00000237441	Chromatin interaction
ENSG00000204209	Chromatin interaction
ENSG00000231500	Chromatin interaction
ENSG00000231925	Chromatin interaction
ENSG00000223501	Chromatin interaction
ENSG00000227057	Chromatin interaction
ENSG00000237649	Chromatin interaction
ENSG00000149115	Chromatin interaction
ENSG00000030110	Chromatin interaction
ENSG00000236104	Chromatin interaction
ENSG00000213588	Chromatin interaction

Extended variants
information (count: 35 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:31)

rs_ID	r²[population]
rs1106606	0.83[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11751696	0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11753355	1.00[AFR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11756267	1.00[AFR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11756767	1.00[AFR][1000 genomes];0.96[EUR][1000 genomes]
rs11759285	0.82[EUR][1000 genomes]
rs2235982	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs41271245	1.00[AFR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4231	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs55699469	1.00[AFR][1000 genomes];0.96[EUR][1000 genomes]
rs7752202	0.90[EUR][1000 genomes]
rs9277997	0.89[EUR][1000 genomes]
rs9278001	1.00[AFR][1000 genomes];0.81[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs9278005	1.00[AFR][1000 genomes];0.87[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs9278006	0.87[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs9278007	1.00[AFR][1000 genomes];0.93[EUR][1000 genomes]
rs9278015	0.87[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs9278016	1.00[AFR][1000 genomes];0.87[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs9278019	1.00[AFR][1000 genomes];0.87[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs9278027	1.00[AFR][1000 genomes];0.87[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs9278028	1.00[AFR][1000 genomes];0.82[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs9278034	1.00[AFR][1000 genomes];0.87[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs9278036	1.00[AFR][1000 genomes];0.87[AMR][1000 genomes];0.95[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs9278038	1.00[AFR][1000 genomes];0.87[AMR][1000 genomes];0.97[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs9278039	0.85[EUR][1000 genomes]
rs9278040	1.00[AFR][1000 genomes];0.87[AMR][1000 genomes];0.97[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs9278043	0.84[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9278044	1.00[AFR][1000 genomes];0.87[AMR][1000 genomes];1.00[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs9278045	1.00[AFR][1000 genomes];0.93[AMR][1000 genomes];0.97[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs9278046	1.00[AFR][1000 genomes];0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs9278049	1.00[AFR][1000 genomes];0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];0.84[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:4 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv830635	chr6:33238005-33413787	Active TSS Flanking Bivalent TSS/Enh Weak transcription Genic enhancers Transcr. at gene 5' and 3' Enhancers Strong transcription Flanking Active TSS ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	129 gene(s)	inside rSNPs	diseases
2	nsv830637	chr6:33329365-33510704	Flanking Active TSS Weak transcription Strong transcription Active TSS Enhancers Genic enhancers Transcr. at gene 5' and 3' Bivalent Enhancer ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	62 gene(s)	inside rSNPs	diseases
3	nsv885769	chr6:33377522-33412197	Weak transcription Enhancers Active TSS Flanking Active TSS Strong transcription Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent Enhancer ZNF genes & repeats	TF binding region CpG island Chromatin interactive region miRNA	48 gene(s)	inside rSNPs	diseases
4	nsv602832	chr6:33382241-33520221	Weak transcription Active TSS Strong transcription Enhancers Flanking Active TSS Genic enhancers 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	41 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	chr6:33379600-33384200	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
2	chr6:33379600-33384400	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
3	chr6:33379600-33384400	Weak transcription	Fetal Kidney	kidney
4	chr6:33379600-33384400	Weak transcription	Stomach Mucosa	stomach
5	chr6:33379800-33382600	Weak transcription	Fetal Brain Male	brain
6	chr6:33379800-33383200	Genic enhancers	NHDF-Ad	bronchial
7	chr6:33379800-33383600	Genic enhancers	Primary T helper cells PMA-I stimulated	--
8	chr6:33379800-33384200	Genic enhancers	Primary T helper naive cells fromperipheralblood	blood
9	chr6:33379800-33384200	Weak transcription	Pancreatic Islets	Pancreatic Islet
10	chr6:33379800-33384400	Genic enhancers	Primary B cells from peripheral blood	blood
11	chr6:33380000-33383000	Strong transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
12	chr6:33380000-33383000	Strong transcription	Primary mononuclear cells fromperipheralblood	Blood
13	chr6:33380000-33383200	Strong transcription	HUES6 Cell Line	embryonic stem cell
14	chr6:33380000-33383400	Strong transcription	iPS-20b Cell Line	embryonic stem cell
15	chr6:33380000-33383400	Strong transcription	Fetal Thymus	thymus
16	chr6:33380000-33383600	Genic enhancers	Dnd41	blood
17	chr6:33380000-33383800	Genic enhancers	Cortex derived primary cultured neurospheres	brain
18	chr6:33380000-33384000	Genic enhancers	Primary T helper memory cells from peripheral blood 2	blood
19	chr6:33380000-33384200	Genic enhancers	Primary T helper 17 cells PMA-I stimulated	--
20	chr6:33380000-33384400	Genic enhancers	H1 Derived Mesenchymal Stem Cells	ES cell derived
21	chr6:33380000-33384400	Genic enhancers	Primary T cells fromperipheralblood	blood
22	chr6:33380000-33384400	Genic enhancers	Skeletal Muscle Female	skeletal muscle
23	chr6:33380000-33384600	Transcr. at gene 5' and 3'	Breast Myoepithelial Primary Cells	Breast
24	chr6:33380200-33382600	Strong transcription	Fetal Lung	lung
25	chr6:33380200-33383000	Strong transcription	Fetal Muscle Leg	muscle
26	chr6:33380200-33383200	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
27	chr6:33380200-33383200	Strong transcription	HUES64 Cell Line	embryonic stem cell
28	chr6:33380200-33383200	Strong transcription	iPS-18 Cell Line	embryonic stem cell
29	chr6:33380200-33383200	Strong transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
30	chr6:33380200-33383200	Strong transcription	Brain Hippocampus Middle	brain
31	chr6:33380200-33383200	Strong transcription	Fetal Intestine Large	intestine
32	chr6:33380200-33383200	Strong transcription	HepG2	liver
33	chr6:33380200-33383400	Strong transcription	NHEK	skin
34	chr6:33380200-33383600	Strong transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
35	chr6:33380200-33383600	Strong transcription	Esophagus	oesophagus
36	chr6:33380200-33383600	Strong transcription	Placenta Amnion	Placenta Amnion
37	chr6:33380200-33383600	Strong transcription	Sigmoid Colon	Sigmoid Colon
38	chr6:33380200-33383600	Strong transcription	Thymus	Thymus
39	chr6:33380200-33383800	Strong transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
40	chr6:33380200-33383800	Genic enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
41	chr6:33380200-33383800	Weak transcription	Right Atrium	heart
42	chr6:33380200-33384000	Strong transcription	H9 Cell Line	embryonic stem cell
43	chr6:33380200-33384000	Transcr. at gene 5' and 3'	Foreskin Fibroblast Primary Cells skin02	Skin
44	chr6:33380200-33384000	Strong transcription	Aorta	Aorta
45	chr6:33380200-33384000	Strong transcription	Brain Substantia Nigra	brain
46	chr6:33380200-33384200	Strong transcription	HUES48 Cell Line	embryonic stem cell
47	chr6:33380200-33384400	Genic enhancers	Primary T helper naive cells from peripheral blood	blood
48	chr6:33380200-33384400	Strong transcription	Brain Inferior Temporal Lobe	brain
49	chr6:33380200-33384800	Genic enhancers	Primary Natural Killer cells fromperipheralblood	blood
50	chr6:33380200-33384800	Genic enhancers	Spleen	Spleen

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