Variant report

Variant	rs529403806
Chromosome Location	chr6:29602399-29602400
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

TF binding
region (count:3)
CpG islands
(count:61)
Chromatin interactive
region (count:0)
LncRNA
region (count:0)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

(count:3 , 50 per page) page: 1

No.	Transcrition factor	Chromosome Location	Cell Line	Cell type	Cell Stage	Matched TF binding sites
1	RCOR1	chr6:29602396-29602464	GM12878	blood:	n/a	n/a
2	SPI1	chr6:29602212-29602503	GM12878	blood:	n/a	n/a
3	SPI1	chr6:29602230-29602549	GM12891	blood:	n/a	n/a

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

No.	Chromosome Location	Cell Line	Cell type	Cell Stage
1	chr6:29602390-29602440	RPTEC	kidney:	n/a
2	chr6:29602390-29602440	NT2-D1	testis:	n/a
3	chr6:29602390-29602440	SK-N-SH	brain:	n/a
4	chr6:29602390-29602440	AG09319	gingival:	n/a
5	chr6:29602390-29602440	H1-hESC	embryonic stem cell:	embryo
6	chr6:29602390-29602440	AG04449	skin:	fetal
7	chr6:29602390-29602440	Hela-S3	cervix:	n/a
8	chr6:29602390-29602440	SK-N-SH_RA	brain:	n/a
9	chr6:29602390-29602440	SKMC	muscle:	n/a
10	chr6:29602390-29602440	Hepatocyte	liver:	n/a
11	chr6:29602390-29602440	PFSK-1	brain:	n/a
12	chr6:29602390-29602440	NHDF-neo	bronchial:	n/a
13	chr6:29602390-29602440	PrEC	prostate:	n/a
14	chr6:29602390-29602440	SAEC	small airway:	n/a
15	chr6:29602390-29602440	HCM	heart:	n/a
16	chr6:29602390-29602440	MCF10A-Er-Src	breast:	n/a
17	chr6:29602390-29602440	HUVEC	blood vessel:	n/a
18	chr6:29602390-29602440	MCF-7	breast:	n/a
19	chr6:29602390-29602440	SK-N-MC	brain:	n/a
20	chr6:29602390-29602440	U87	brain:	n/a
21	chr6:29602390-29602440	IMR90	lung:	fetal
22	chr6:29602390-29602440	GM12878	blood:	n/a
23	chr6:29602390-29602440	HCT-116	colon:	n/a
24	chr6:29602390-29602440	NHBE	bronchial:	n/a
25	chr6:29602390-29602440	ovcar-3	ovarian:	n/a
26	chr6:29602390-29602440	AG09309	skin:	n/a
27	chr6:29602390-29602440	AG10803	skin:	n/a
28	chr6:29602390-29602440	AoSMC	blood vessel:	n/a
29	chr6:29602390-29602440	Jurkat	blood:	n/a
30	chr6:29602390-29602440	HepG2	liver:	n/a
31	chr6:29602390-29602440	HEK293	kidney:	embryo
32	chr6:29602390-29602440	AG04450	lung:	fetal
33	chr6:29602390-29602440	HPAEpiC	pulmonary alveolar:	n/a
34	chr6:29602390-29602440	HCF	heart:	n/a
35	chr6:29602390-29602440	BE2_C	brain:	n/a
36	chr6:29602390-29602440	GM12891	blood:	n/a
37	chr6:29602390-29602440	GM06990	blood:	n/a
38	chr6:29602390-29602440	ECC-1	luminal epithelium:	n/a
39	chr6:29602390-29602440	HRPEpiC	eye:	n/a
40	chr6:29602390-29602440	HMEC	breast:	n/a
41	chr6:29602390-29602440	CMK	blood:	n/a
42	chr6:29602390-29602440	HRE	kidney:	n/a
43	chr6:29602390-29602440	A549	lung:	n/a
44	chr6:29602390-29602440	Caco-2	colon:	n/a
45	chr6:29602390-29602440	NH-A	brain:	n/a
46	chr6:29602390-29602440	HL-60	blood:	n/a
47	chr6:29602390-29602440	GM12892	blood:	n/a
48	chr6:29602390-29602440	K562	blood:	n/a
49	chr6:29602390-29602440	HEEpiC	esophagus:	n/a
50	chr6:29602390-29602440	HAEpiC	amniotic membrane:	n/a

No data

Variant related genes	Relation type
GABBR1	TF binding region
GABBR1	CpG island

Extended variants
information (count: 3 )
Associated
traits (count: 0)

Variant overlapped rSNPs/rCNVs (count:3 , 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	nsv970100	chr6:29601673-29604881	Flanking Active TSS Enhancers Active TSS Weak transcription Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:36 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:29599000-29602400	Active TSS	ES-I3 Cell Line	embryonic stem cell
2	chr6:29599800-29602600	Flanking Active TSS	Primary B cells from cord blood	blood
3	chr6:29601200-29602400	Flanking Active TSS	Primary monocytes fromperipheralblood	blood
4	chr6:29601200-29602600	Flanking Active TSS	GM12878-XiMat	blood
5	chr6:29601200-29602800	Flanking Active TSS	Primary B cells from peripheral blood	blood
6	chr6:29601200-29603000	Flanking Active TSS	Monocytes-CD14+_RO01746	blood
7	chr6:29601600-29602400	Flanking Active TSS	iPS-20b Cell Line	embryonic stem cell
8	chr6:29601600-29602400	Enhancers	Primary T helper memory cells from peripheral blood 2	blood
9	chr6:29601600-29602600	Flanking Active TSS	H1 Cell Line	embryonic stem cell
10	chr6:29601600-29602600	Flanking Active TSS	iPS-18 Cell Line	embryonic stem cell
11	chr6:29601800-29602400	Enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin
12	chr6:29601800-29602400	Enhancers	Adipose Nuclei	Adipose
13	chr6:29601800-29602400	Enhancers	Brain Cingulate Gyrus	brain
14	chr6:29601800-29602400	Enhancers	Brain Dorsolateral Prefrontal Cortex	brain
15	chr6:29601800-29602400	Enhancers	K562	blood
16	chr6:29601800-29602600	Enhancers	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
17	chr6:29601800-29602600	Flanking Active TSS	HUES48 Cell Line	embryonic stem cell
18	chr6:29601800-29602600	Flanking Active TSS	HUES6 Cell Line	embryonic stem cell
19	chr6:29601800-29602600	Enhancers	Primary Natural Killer cells fromperipheralblood	blood
20	chr6:29601800-29602600	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Female	--
21	chr6:29601800-29602600	Enhancers	HMEC	breast
22	chr6:29601800-29603000	Enhancers	Primary T helper cells fromperipheralblood	blood
23	chr6:29601800-29608600	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
24	chr6:29602000-29602400	Weak transcription	H9 Cell Line	embryonic stem cell
25	chr6:29602000-29602400	Flanking Active TSS	HUES64 Cell Line	embryonic stem cell
26	chr6:29602000-29602400	Enhancers	Breast Myoepithelial Primary Cells	Breast
27	chr6:29602000-29602400	Active TSS	Ganglion Eminence derived primary cultured neurospheres	brain
28	chr6:29602000-29602400	Enhancers	Fetal Brain Male	brain
29	chr6:29602000-29603000	Enhancers	ES-UCSF4 Cell Line	embryonic stem cell
30	chr6:29602200-29602400	Enhancers	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
31	chr6:29602200-29602400	Enhancers	iPS DF 19.11 Cell Line	embryonic stem cell
32	chr6:29602200-29602400	Flanking Active TSS	Brain Germinal Matrix	brain
33	chr6:29602200-29602400	Flanking Active TSS	Fetal Brain Female	brain
34	chr6:29602200-29602600	Flanking Active TSS	iPS-15b Cell Line	embryonic stem cell
35	chr6:29602200-29602600	Flanking Active TSS	Primary hematopoietic stem cells G-CSF-mobilized Male	--
36	chr6:29602200-29602800	Enhancers	Primary hematopoietic stem cells	blood

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links