Variant report

Variant	rs2076489
Chromosome Location	chr6:29576437-29576438
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

TF binding
region (count:1)
CpG islands
(count:61)
Chromatin interactive
region (count:5)
LncRNA
region (count:0)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

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

No.	Transcrition factor	Chromosome Location	Cell Line	Cell type	Cell Stage	Matched TF binding sites
1	POLR2A	chr6:29576011-29576760	H1-hESC	embryonic stem cell:	n/a	n/a

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

No.	Chromosome Location	Cell Line	Cell type	Cell Stage
1	chr6:29576422-29576472	MCF-7	breast:	n/a
2	chr6:29576422-29576472	RPTEC	kidney:	n/a
3	chr6:29576422-29576472	T-47D	breast:	n/a
4	chr6:29576422-29576472	SK-N-SH_RA	brain:	n/a
5	chr6:29576422-29576472	GM06990	blood:	n/a
6	chr6:29576422-29576472	AG09309	skin:	n/a
7	chr6:29576422-29576472	AG10803	skin:	n/a
8	chr6:29576422-29576472	GM12878	blood:	n/a
9	chr6:29576422-29576472	IMR90	lung:	fetal
10	chr6:29576422-29576472	BE2_C	brain:	n/a
11	chr6:29576422-29576472	HAEpiC	amniotic membrane:	n/a
12	chr6:29576422-29576472	Caco-2	colon:	n/a
13	chr6:29576422-29576472	HEK293	kidney:	embryo
14	chr6:29576422-29576472	U87	brain:	n/a
15	chr6:29576422-29576472	ProgFib	skin:	n/a
16	chr6:29576422-29576472	LNCaP	prostate:	n/a
17	chr6:29576422-29576472	HepG2	liver:	n/a
18	chr6:29576422-29576472	K562	blood:	n/a
19	chr6:29576422-29576472	AG09319	gingival:	n/a
20	chr6:29576422-29576472	NHDF-neo	bronchial:	n/a
21	chr6:29576422-29576472	NT2-D1	testis:	n/a
22	chr6:29576422-29576472	HRPEpiC	eye:	n/a
23	chr6:29576422-29576472	HRCEpiC	kidney:	n/a
24	chr6:29576422-29576472	HL-60	blood:	n/a
25	chr6:29576422-29576472	HPAEpiC	pulmonary alveolar:	n/a
26	chr6:29576422-29576472	Jurkat	blood:	n/a
27	chr6:29576422-29576472	CMK	blood:	n/a
28	chr6:29576422-29576472	GM12892	blood:	n/a
29	chr6:29576422-29576472	HRE	kidney:	n/a
30	chr6:29576422-29576472	AoSMC	blood vessel:	n/a
31	chr6:29576422-29576472	HCM	heart:	n/a
32	chr6:29576422-29576472	HEEpiC	esophagus:	n/a
33	chr6:29576422-29576472	SAEC	small airway:	n/a
34	chr6:29576422-29576472	PrEC	prostate:	n/a
35	chr6:29576422-29576472	HCT-116	colon:	n/a
36	chr6:29576422-29576472	MCF10A-Er-Src	breast:	n/a
37	chr6:29576422-29576472	H1-hESC	embryonic stem cell:	embryo
38	chr6:29576422-29576472	ECC-1	luminal epithelium:	n/a
39	chr6:29576422-29576472	AG04449	skin:	fetal
40	chr6:29576422-29576472	HCPEpiC	choroid plexus:	n/a
41	chr6:29576422-29576472	HIPEpiC	eye:	n/a
42	chr6:29576422-29576472	SK-N-MC	brain:	n/a
43	chr6:29576422-29576472	HCF	heart:	n/a
44	chr6:29576422-29576472	ovcar-3	ovarian:	n/a
45	chr6:29576422-29576472	NHBE	bronchial:	n/a
46	chr6:29576422-29576472	HMEC	breast:	n/a
47	chr6:29576422-29576472	AG04450	lung:	fetal
48	chr6:29576422-29576472	NB4	blood:	n/a
49	chr6:29576422-29576472	PANC-1	pancreas:	n/a
50	chr6:29576422-29576472	GM12891	blood:	n/a

(count:5 , 50 per page) page: 1

No.	Distal block	Cell Line	Cell type
1	chr6:29571256..29575251-chr6:29575309..29583536,9	K562	blood:
2	chr6:29572757..29580903-chr6:29593317..29599166,10	K562	blood:
3	chr6:29574743..29577585-chr6:29585500..29587353,2	K562	blood:
4	chr6:29564159..29568485-chr6:29574849..29577852,4	K562	blood:
5	chr6:29564159..29568485-chr6:29574849..29577852,3	K562	blood:

No data

Variant related genes	Relation type
GABBR1	TF binding region
GABBR1	CpG island
ENSG00000204681	Chromatin interaction

Extended variants
information (count: 8 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:3)

rs_ID	r²[population]
rs2076482	0.82[ASN][1000 genomes]
rs56333170	1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs9258000	0.82[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	esv2758039	chr6:29469101-29672665	Flanking Active TSS Active TSS Strong transcription Enhancers Weak transcription Bivalent Enhancer Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	23 gene(s)	inside rSNPs	diseases
2	esv2759411	chr6:29469101-29672665	Active TSS Enhancers Flanking Active TSS Weak transcription Flanking Bivalent TSS/Enh Strong transcription Bivalent Enhancer Genic enhancers Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	23 gene(s)	inside rSNPs	diseases
3	nsv528285	chr6:29566842-29588146	Weak transcription Strong transcription Genic enhancers ZNF genes & repeats Enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region	2 gene(s)	inside rSNPs	diseases
4	nsv462671	chr6:29566842-29588146	Strong transcription Weak transcription Genic enhancers Enhancers Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region	2 gene(s)	inside rSNPs	diseases
5	nsv601229	chr6:29566842-29588146	Strong transcription Weak transcription Genic enhancers Transcr. at gene 5' and 3' Enhancers ZNF genes & repeats	TF binding region CpG island Chromatin interactive region	2 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:116 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:29566400-29595200	Weak transcription	Right Atrium	heart
2	chr6:29566600-29587000	Strong transcription	Primary neutrophils fromperipheralblood	blood
3	chr6:29566800-29584600	Strong transcription	IMR90 fetal lung fibroblasts Cell Line	lung
4	chr6:29566800-29590000	Strong transcription	H9 Cell Line	embryonic stem cell
5	chr6:29566800-29590600	Strong transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
6	chr6:29567000-29589800	Strong transcription	HUES6 Cell Line	embryonic stem cell
7	chr6:29567200-29589400	Strong transcription	iPS-20b Cell Line	embryonic stem cell
8	chr6:29567200-29589800	Strong transcription	HUES64 Cell Line	embryonic stem cell
9	chr6:29567600-29583800	Strong transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
10	chr6:29567600-29592400	Strong transcription	Fetal Stomach	stomach
11	chr6:29567600-29595400	Weak transcription	A549	lung
12	chr6:29567800-29582800	Strong transcription	Ovary	ovary
13	chr6:29567800-29584600	Strong transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
14	chr6:29568400-29582600	Strong transcription	HMEC	breast
15	chr6:29568400-29583600	Strong transcription	Fetal Adrenal Gland	Adrenal Gland
16	chr6:29568600-29595200	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
17	chr6:29568800-29578000	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
18	chr6:29568800-29583200	Strong transcription	NHEK	skin
19	chr6:29569000-29582600	Strong transcription	Primary B cells from peripheral blood	blood
20	chr6:29569000-29582800	Strong transcription	Osteobl	bone
21	chr6:29569000-29584600	Strong transcription	Spleen	Spleen
22	chr6:29569000-29592400	Strong transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
23	chr6:29569200-29582800	Strong transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
24	chr6:29569200-29592200	Strong transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
25	chr6:29569400-29581600	Strong transcription	Foreskin Fibroblast Primary Cells skin02	Skin
26	chr6:29569400-29581600	Strong transcription	Primary mononuclear cells fromperipheralblood	Blood
27	chr6:29569400-29582400	Strong transcription	Fetal Lung	lung
28	chr6:29569400-29592000	Strong transcription	Stomach Smooth Muscle	stomach
29	chr6:29569400-29595600	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
30	chr6:29569600-29581800	Strong transcription	Placenta Amnion	Placenta Amnion
31	chr6:29569600-29582400	Strong transcription	Duodenum Smooth Muscle	Duodenum
32	chr6:29569800-29583000	Strong transcription	Foreskin Fibroblast Primary Cells skin01	Skin
33	chr6:29569800-29583200	Strong transcription	Fetal Muscle Trunk	muscle
34	chr6:29570000-29577400	Strong transcription	NHLF	lung
35	chr6:29570000-29581600	Strong transcription	Lung	lung
36	chr6:29570000-29582600	Strong transcription	Monocytes-CD14+_RO01746	blood
37	chr6:29570200-29577400	Strong transcription	Primary T helper 17 cells PMA-I stimulated	--
38	chr6:29570200-29577600	Strong transcription	Adipose Nuclei	Adipose
39	chr6:29570200-29580200	Strong transcription	Foreskin Melanocyte Primary Cells skin03	Skin
40	chr6:29570200-29582600	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
41	chr6:29570400-29577400	Strong transcription	Primary B cells from cord blood	blood
42	chr6:29570400-29577600	Strong transcription	Aorta	Aorta
43	chr6:29570600-29577400	Strong transcription	Right Ventricle	heart
44	chr6:29570800-29582000	Strong transcription	Primary T helper naive cells fromperipheralblood	blood
45	chr6:29570800-29582200	Strong transcription	Colon Smooth Muscle	Colon
46	chr6:29570800-29589600	Strong transcription	iPS-18 Cell Line	embryonic stem cell
47	chr6:29571000-29577200	Strong transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
48	chr6:29571000-29582400	Strong transcription	K562	blood
49	chr6:29571200-29580200	Weak transcription	Primary hematopoietic stem cells	blood
50	chr6:29571400-29583200	Strong transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived

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