Variant report

Variant	rs28732158
Chromosome Location	chr6:31630318-31630319
allele	C/G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

TF binding
region (count:17)
CpG islands
(count:61)
Chromatin interactive
region (count:11)
LncRNA
region (count:0)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

(count:17 , 50 per page) page: 1

No.	Transcrition factor	Chromosome Location	Cell Line	Cell type	Cell Stage	Matched TF binding sites
1	POLR2A	chr6:31624845-31631075	K562	blood:	n/a	n/a
2	FOSL2	chr6:31629420-31630717	HepG2	liver:	n/a	n/a
3	POLR2A	chr6:31626649-31630457	K562	blood:	n/a	n/a
4	POLR2A	chr6:31624936-31630633	HepG2	liver:	n/a	n/a
5	POLR2A	chr6:31629382-31631350	K562	blood:	n/a	n/a
6	POLR2A	chr6:31624853-31630685	HepG2	liver:	n/a	n/a
7	POLR2A	chr6:31629379-31630717	K562	blood:	n/a	n/a
8	HEY1	chr6:31629512-31635000	K562	blood:	n/a	n/a
9	POLR2A	chr6:31629499-31630455	GM12878	blood:	n/a	n/a
10	POLR2A	chr6:31629927-31630445	GM12892	blood:	n/a	n/a
11	POLR2A	chr6:31619380-31634380	HepG2	liver:	n/a	n/a
12	HEY1	chr6:31624848-31631182	HepG2	liver:	n/a	chr6:31628563-31628578
13	JUN	chr6:31630299-31634993	K562	blood:	n/a	n/a
14	POLR2A	chr6:31629859-31630943	HepG2	liver:	n/a	n/a
15	POLR2A	chr6:31629414-31630568	K562	blood:	n/a	n/a
16	POLR2A	chr6:31629946-31630460	HepG2	liver:	n/a	n/a
17	POLR2A	chr6:31626993-31630572	SK-N-MC	brain:	n/a	n/a

(count:61 , 50 per page) page: 1 2

No.	Chromosome Location	Cell Line	Cell type	Cell Stage
1	chr6:31630272-31630322	HCF	heart:	n/a
2	chr6:31630272-31630322	Hepatocyte	liver:	n/a
3	chr6:31630272-31630322	AoSMC	blood vessel:	n/a
4	chr6:31630272-31630322	MCF10A-Er-Src	breast:	n/a
5	chr6:31630272-31630322	HUVEC	blood vessel:	n/a
6	chr6:31630272-31630322	HNPCEpiC	eye:	n/a
7	chr6:31630272-31630322	HRPEpiC	eye:	n/a
8	chr6:31630272-31630322	AG10803	skin:	n/a
9	chr6:31630272-31630322	MCF-7	breast:	n/a
10	chr6:31630272-31630322	NHDF-neo	bronchial:	n/a
11	chr6:31630272-31630322	HCPEpiC	choroid plexus:	n/a
12	chr6:31630272-31630322	SKMC	muscle:	n/a
13	chr6:31630272-31630322	HCT-116	colon:	n/a
14	chr6:31630272-31630322	PFSK-1	brain:	n/a
15	chr6:31630272-31630322	GM12891	blood:	n/a
16	chr6:31630272-31630322	SK-N-MC	brain:	n/a
17	chr6:31630272-31630322	BE2_C	brain:	n/a
18	chr6:31630272-31630322	Hela-S3	cervix:	n/a
19	chr6:31630272-31630322	AG04449	skin:	fetal
20	chr6:31630272-31630322	IMR90	lung:	fetal
21	chr6:31630272-31630322	NHBE	bronchial:	n/a
22	chr6:31630272-31630322	HEEpiC	esophagus:	n/a
23	chr6:31630272-31630322	K562	blood:	n/a
24	chr6:31630272-31630322	SK-N-SH	brain:	n/a
25	chr6:31630272-31630322	GM19239	blood:	n/a
26	chr6:31630272-31630322	Jurkat	blood:	n/a
27	chr6:31630272-31630322	PANC-1	pancreas:	n/a
28	chr6:31630272-31630322	HEK293	kidney:	embryo
29	chr6:31630272-31630322	ovcar-3	ovarian:	n/a
30	chr6:31630272-31630322	NT2-D1	testis:	n/a
31	chr6:31630272-31630322	GM12878	blood:	n/a
32	chr6:31630272-31630322	HIPEpiC	eye:	n/a
33	chr6:31630272-31630322	HPAEpiC	pulmonary alveolar:	n/a
34	chr6:31630272-31630322	HRCEpiC	kidney:	n/a
35	chr6:31630272-31630322	HRE	kidney:	n/a
36	chr6:31630272-31630322	HAEpiC	amniotic membrane:	n/a
37	chr6:31630272-31630322	SAEC	small airway:	n/a
38	chr6:31630272-31630322	RPTEC	kidney:	n/a
39	chr6:31630272-31630322	LNCaP	prostate:	n/a
40	chr6:31630272-31630322	PrEC	prostate:	n/a
41	chr6:31630272-31630322	CMK	blood:	n/a
42	chr6:31630272-31630322	A549	lung:	n/a
43	chr6:31630272-31630322	NB4	blood:	n/a
44	chr6:31630272-31630322	NH-A	brain:	n/a
45	chr6:31630272-31630322	SK-N-SH_RA	brain:	n/a
46	chr6:31630272-31630322	ProgFib	skin:	n/a
47	chr6:31630272-31630322	T-47D	breast:	n/a
48	chr6:31630272-31630322	H1-hESC	embryonic stem cell:	embryo
49	chr6:31630272-31630322	Caco-2	colon:	n/a
50	chr6:31630272-31630322	U87	brain:	n/a

(count:11 , 50 per page) page: 1

No.	Distal block	Cell Line	Cell type
1	chr6:31630209..31635577-chr6:31828786..31834874,28	K562	blood:
2	chr6:31506496..31512275-chr6:31630248..31634828,11	K562	blood:
3	chr6:31617566..31630444-chr6:31823885..31836000,84	K562	blood:
4	chr6:31495344..31498264-chr6:31630144..31631668,2	K562	blood:
5	chr6:31586074..31595285-chr6:31626460..31635395,11	MCF-7	breast:
6	chr6:31629136..31631208-chr6:31655120..31656869,2	MCF-7	breast:
7	chr6:31627970..31635325-chr6:31864036..31871429,12	K562	blood:
8	chr6:31628509..31634075-chr6:31935054..31938547,6	K562	blood:
9	chr6:31512487..31517874-chr6:31628889..31634381,12	K562	blood:
10	chr6:31630138..31633537-chr6:31702184..31707226,4	MCF-7	breast:
11	chr6:31629180..31631831-chr6:31863567..31866267,3	K562	blood:

No data

Variant related genes	Relation type
ENSG00000263020	TF binding region
CSNK2B	TF binding region
ENSG00000201207	TF binding region
C6orf47	TF binding region
CSNK2B	CpG island
C6orf47	CpG island
ENSG00000263020	CpG island
ENSG00000201207	CpG island
ENSG00000166278	Chromatin interaction
ENSG00000204385	Chromatin interaction
ENSG00000204427	Chromatin interaction
ENSG00000204366	Chromatin interaction
ENSG00000265236	Chromatin interaction
ENSG00000204469	Chromatin interaction
ENSG00000198563	Chromatin interaction
ENSG00000204371	Chromatin interaction
ENSG00000234006	Chromatin interaction
ENSG00000213760	Chromatin interaction
ENSG00000204386	Chromatin interaction
ENSG00000204498	Chromatin interaction
ENSG00000204511	Chromatin interaction
ENSG00000200816	Chromatin interaction
ENSG00000254870	Chromatin interaction
ENSG00000213719	Chromatin interaction
ENSG00000204351	Chromatin interaction
ENSG00000225499	Chromatin interaction

Extended variants
information (count: 38 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:16)

rs_ID	r²[population]
rs2280801	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.95[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs2295663	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.95[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs28732148	0.81[EUR][1000 genomes]
rs28732150	1.00[AMR][1000 genomes];0.88[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs28732154	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.90[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs28732157	0.86[AFR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs28895016	0.84[EUR][1000 genomes]
rs3131384	0.82[ASN][1000 genomes]
rs3993757	0.93[ASN][1000 genomes]
rs9348876	0.81[EUR][1000 genomes]
rs9368699	1.00[AMR][1000 genomes]
rs9378164	0.87[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs9378200	0.83[EUR][1000 genomes]
rs9380266	0.87[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9391731	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9404941	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:22 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv601609	chr6:31280101-31799786	Active TSS Flanking Active TSS Bivalent/Poised TSS Strong transcription Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Enhancers Genic enhancers Weak transcription Bivalent Enhancer ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	332 gene(s)	inside rSNPs	diseases
2	nsv601610	chr6:31280101-31960770	Enhancers Flanking Active TSS Weak transcription Genic enhancers Strong transcription Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3' Bivalent Enhancer ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	370 gene(s)	inside rSNPs	diseases
3	nsv601628	chr6:31280327-31990098	Weak transcription Transcr. at gene 5' and 3' Active TSS Enhancers Flanking Active TSS Strong transcription Bivalent/Poised TSS Flanking Bivalent TSS/Enh Genic enhancers ZNF genes & repeats Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	376 gene(s)	inside rSNPs	diseases
4	nsv601629	chr6:31280327-31996185	Strong transcription Enhancers Weak transcription Flanking Active TSS Transcr. at gene 5' and 3' Genic enhancers Bivalent Enhancer Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	376 gene(s)	inside rSNPs	diseases
5	nsv601630	chr6:31280327-32011317	Genic enhancers Active TSS Weak transcription Enhancers Strong transcription Flanking Active TSS Bivalent/Poised TSS Bivalent Enhancer Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	378 gene(s)	inside rSNPs	diseases
6	nsv601631	chr6:31280327-32017540	Genic enhancers Enhancers Weak transcription Active TSS Strong transcription Flanking Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	378 gene(s)	inside rSNPs	diseases
7	nsv1023939	chr6:31325961-32026747	Active TSS Transcr. at gene 5' and 3' Flanking Active TSS Genic enhancers Enhancers Weak transcription ZNF genes & repeats Strong transcription Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	372 gene(s)	inside rSNPs	diseases
8	nsv538188	chr6:31325961-32026747	Active TSS Weak transcription Flanking Active TSS Enhancers Strong transcription Bivalent/Poised TSS Transcr. at gene 5' and 3' Genic enhancers ZNF genes & repeats Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	372 gene(s)	inside rSNPs	diseases
9	nsv432868	chr6:31338844-31721033	Bivalent/Poised TSS Weak transcription Active TSS Enhancers Flanking Active TSS Strong transcription Bivalent Enhancer Transcr. at gene 5' and 3' Genic enhancers Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	250 gene(s)	inside rSNPs	diseases
10	nsv1021747	chr6:31386219-31907266	Flanking Active TSS Active TSS Bivalent Enhancer Weak transcription Strong transcription Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Enhancers Genic enhancers Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	330 gene(s)	inside rSNPs	diseases
11	nsv830627	chr6:31496214-31659950	Transcr. at gene 5' and 3' Flanking Active TSS Weak transcription Genic enhancers Enhancers Strong transcription Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	182 gene(s)	inside rSNPs	diseases
12	nsv884418	chr6:31525448-31741078	Active TSS Genic enhancers Enhancers Flanking Active TSS Weak transcription 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 miRNA target site	206 gene(s)	inside rSNPs	diseases
13	nsv1033154	chr6:31550614-32009410	Strong transcription Weak transcription Bivalent Enhancer Active TSS Flanking Active TSS Enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3' Genic enhancers Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	326 gene(s)	inside rSNPs	diseases
14	nsv462871	chr6:31575276-31632134	Strong transcription Genic enhancers Active TSS Flanking Active TSS Enhancers Transcr. at gene 5' and 3' Weak transcription Bivalent/Poised TSS ZNF genes & repeats Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA	133 gene(s)	inside rSNPs	diseases
15	nsv601942	chr6:31575276-31632134	Flanking Active TSS Active TSS Genic enhancers Weak transcription Enhancers Strong transcription Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA	133 gene(s)	inside rSNPs	diseases
16	nsv884419	chr6:31585000-31632651	Weak transcription Transcr. at gene 5' and 3' Genic enhancers Active TSS Enhancers Flanking Active TSS Strong transcription ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA	138 gene(s)	inside rSNPs	diseases
17	nsv884420	chr6:31586827-31632651	Genic enhancers Weak transcription Enhancers Flanking Active TSS Transcr. at gene 5' and 3' Strong transcription Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA	138 gene(s)	inside rSNPs	diseases
18	nsv884421	chr6:31588151-31631907	Active TSS Flanking Active TSS Strong transcription Weak transcription Transcr. at gene 5' and 3' Genic enhancers Enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA	129 gene(s)	inside rSNPs	diseases
19	nsv884422	chr6:31592524-31631907	Genic enhancers Enhancers Active TSS Strong transcription Flanking Active TSS Transcr. at gene 5' and 3' Weak transcription Flanking Bivalent TSS/Enh Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA	83 gene(s)	inside rSNPs	diseases
20	nsv884424	chr6:31593729-31632651	Strong transcription Transcr. at gene 5' and 3' Weak transcription Genic enhancers Active TSS Enhancers Flanking Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA	93 gene(s)	inside rSNPs	diseases
21	nsv1017945	chr6:31609641-32481240	Genic enhancers Weak transcription Transcr. at gene 5' and 3' Enhancers Active TSS Flanking Active TSS Bivalent Enhancer Strong transcription ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	322 gene(s)	inside rSNPs	diseases
22	esv3428142	chr6:31615800-31881809	Flanking Active TSS Active TSS Weak transcription Enhancers Transcr. at gene 5' and 3' Bivalent Enhancer Strong transcription Genic enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	257 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	chr6:31628600-31631800	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
2	chr6:31629000-31631000	Weak transcription	ES-I3 Cell Line	embryonic stem cell
3	chr6:31629000-31631000	Weak transcription	Pancreatic Islets	Pancreatic Islet
4	chr6:31629000-31631000	Weak transcription	HSMMtube	muscle
5	chr6:31629000-31631400	Weak transcription	Psoas Muscle	Psoas
6	chr6:31629000-31631600	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
7	chr6:31629000-31631600	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
8	chr6:31629000-31631600	Weak transcription	Ovary	ovary
9	chr6:31629000-31631800	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
10	chr6:31629200-31630400	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
11	chr6:31629200-31630400	Weak transcription	Primary T helper naive cells from peripheral blood	blood
12	chr6:31629200-31630400	Strong transcription	Brain Cingulate Gyrus	brain
13	chr6:31629200-31630400	Genic enhancers	Duodenum Mucosa	Duodenum
14	chr6:31629200-31630600	Weak transcription	Primary T cells from cord blood	blood
15	chr6:31629200-31630600	Genic enhancers	Fetal Intestine Small	intestine
16	chr6:31629200-31630600	Weak transcription	Small Intestine	intestine
17	chr6:31629200-31630800	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
18	chr6:31629200-31630800	Genic enhancers	Fetal Intestine Large	intestine
19	chr6:31629200-31630800	Weak transcription	Left Ventricle	heart
20	chr6:31629200-31630800	Weak transcription	Pancreas	Pancrea
21	chr6:31629200-31631000	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
22	chr6:31629200-31631000	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
23	chr6:31629200-31631000	Weak transcription	Primary T killer memory cells from peripheral blood	blood
24	chr6:31629200-31631000	Weak transcription	Muscle Satellite Cultured Cells	--
25	chr6:31629200-31631000	Strong transcription	Brain Dorsolateral Prefrontal Cortex	brain
26	chr6:31629200-31631000	Weak transcription	Fetal Heart	heart
27	chr6:31629200-31631000	Weak transcription	Fetal Kidney	kidney
28	chr6:31629200-31631000	Weak transcription	Rectal Smooth Muscle	rectum
29	chr6:31629200-31631000	Weak transcription	Stomach Mucosa	stomach
30	chr6:31629200-31631000	Weak transcription	HUVEC	blood vessel
31	chr6:31629200-31631000	Genic enhancers	K562	blood
32	chr6:31629200-31631000	Strong transcription	NHEK	skin
33	chr6:31629200-31631200	Strong transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
34	chr6:31629200-31631200	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
35	chr6:31629200-31631200	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
36	chr6:31629200-31631200	Genic enhancers	Primary hematopoietic stem cells G-CSF-mobilized Male	--
37	chr6:31629200-31631200	Genic enhancers	Fetal Muscle Leg	muscle
38	chr6:31629200-31631200	Weak transcription	Right Atrium	heart
39	chr6:31629200-31631400	Weak transcription	H9 Cell Line	embryonic stem cell
40	chr6:31629200-31631400	Genic enhancers	Fetal Stomach	stomach
41	chr6:31629200-31631600	Genic enhancers	Primary T cells fromperipheralblood	blood
42	chr6:31629200-31632000	Genic enhancers	Primary Natural Killer cells fromperipheralblood	blood
43	chr6:31629400-31630800	Genic enhancers	Hela-S3	cervix
44	chr6:31629400-31631000	Strong transcription	H9 Derived Neuron Cultured Cells	ES cell derived
45	chr6:31629400-31631000	Genic enhancers	Ganglion Eminence derived primary cultured neurospheres	brain
46	chr6:31629400-31631000	Genic enhancers	Thymus	Thymus
47	chr6:31629400-31631200	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
48	chr6:31629400-31631200	Strong transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
49	chr6:31629400-31631400	Strong transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
50	chr6:31629400-31631400	Strong transcription	HUES48 Cell Line	embryonic stem cell

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