Variant report

Variant	rs2523713
Chromosome Location	chr6:30173330-30173331
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:1)
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	chr6:30173041-30173349	GM12878	blood:	n/a	n/a

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

No.	Chromosome Location	Cell Line	Cell type	Cell Stage
1	chr6:30173283-30173333	U87	brain:	n/a
2	chr6:30173283-30173333	AG04450	lung:	fetal
3	chr6:30173283-30173333	SK-N-SH	brain:	n/a
4	chr6:30173283-30173333	HCPEpiC	choroid plexus:	n/a
5	chr6:30173283-30173333	AG09319	gingival:	n/a
6	chr6:30173283-30173333	RPTEC	kidney:	n/a
7	chr6:30173283-30173333	Hepatocyte	liver:	n/a
8	chr6:30173283-30173333	HCM	heart:	n/a
9	chr6:30173283-30173333	GM06990	blood:	n/a
10	chr6:30173283-30173333	HMEC	breast:	n/a
11	chr6:30173283-30173333	NT2-D1	testis:	n/a
12	chr6:30173283-30173333	NH-A	brain:	n/a
13	chr6:30173283-30173333	AG09309	skin:	n/a
14	chr6:30173283-30173333	GM12878	blood:	n/a
15	chr6:30173283-30173333	HCT-116	colon:	n/a
16	chr6:30173283-30173333	NHDF-neo	bronchial:	n/a
17	chr6:30173283-30173333	A549	lung:	n/a
18	chr6:30173283-30173333	AG10803	skin:	n/a
19	chr6:30173283-30173333	SK-N-SH_RA	brain:	n/a
20	chr6:30173283-30173333	MCF10A-Er-Src	breast:	n/a
21	chr6:30173283-30173333	PFSK-1	brain:	n/a
22	chr6:30173283-30173333	BE2_C	brain:	n/a
23	chr6:30173283-30173333	SK-N-MC	brain:	n/a
24	chr6:30173283-30173333	T-47D	breast:	n/a
25	chr6:30173283-30173333	HL-60	blood:	n/a
26	chr6:30173283-30173333	MCF-7	breast:	n/a
27	chr6:30173283-30173333	Caco-2	colon:	n/a
28	chr6:30173283-30173333	SAEC	small airway:	n/a
29	chr6:30173283-30173333	AG04449	skin:	fetal
30	chr6:30173283-30173333	AoSMC	blood vessel:	n/a
31	chr6:30173283-30173333	K562	blood:	n/a
32	chr6:30173283-30173333	NB4	blood:	n/a
33	chr6:30173283-30173333	HCF	heart:	n/a
34	chr6:30173283-30173333	HepG2	liver:	n/a
35	chr6:30173283-30173333	ovcar-3	ovarian:	n/a
36	chr6:30173283-30173333	NHBE	bronchial:	n/a
37	chr6:30173283-30173333	Hela-S3	cervix:	n/a
38	chr6:30173283-30173333	GM12892	blood:	n/a
39	chr6:30173283-30173333	HUVEC	blood vessel:	n/a
40	chr6:30173283-30173333	H1-hESC	embryonic stem cell:	embryo
41	chr6:30173283-30173333	HRCEpiC	kidney:	n/a
42	chr6:30173283-30173333	ECC-1	luminal epithelium:	n/a
43	chr6:30173283-30173333	HPAEpiC	pulmonary alveolar:	n/a
44	chr6:30173283-30173333	CMK	blood:	n/a
45	chr6:30173283-30173333	HIPEpiC	eye:	n/a
46	chr6:30173283-30173333	PANC-1	pancreas:	n/a
47	chr6:30173283-30173333	GM12891	blood:	n/a
48	chr6:30173283-30173333	BJ	skin:	n/a
49	chr6:30173283-30173333	IMR90	lung:	fetal
50	chr6:30173283-30173333	LNCaP	prostate:	n/a

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

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr6:30172695..30175243-chr6:30183856..30185988,2	K562	blood:

No data

Variant related genes	Relation type
TRIM26	TF binding region
TRIM26	CpG island

Extended variants
information (count: 43 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:43)

rs_ID	r²[population]
rs1117487	0.89[AFR][1000 genomes];0.96[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1117488	0.89[AFR][1000 genomes];0.96[AMR][1000 genomes];0.97[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs1117490	0.88[AFR][1000 genomes];0.96[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11969573	0.81[ASN][1000 genomes]
rs1573295	0.80[AFR][1000 genomes]
rs2021722	0.89[AFR][1000 genomes];0.96[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2023475	0.81[ASN][1000 genomes]
rs2106070	0.80[AFR][1000 genomes]
rs2106071	0.80[AFR][1000 genomes]
rs2284166	0.87[AFR][1000 genomes];0.94[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2428503	1.00[AFR][1000 genomes];0.96[AMR][1000 genomes];0.98[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs2517590	0.81[ASN][1000 genomes]
rs2517608	0.98[AFR][1000 genomes];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2517610	0.88[AFR][1000 genomes];0.96[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2517611	1.00[AFR][1000 genomes];0.96[AMR][1000 genomes];0.99[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs2517614	0.97[AFR][1000 genomes];0.94[AMR][1000 genomes];0.98[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs2523714	0.87[AFR][1000 genomes];0.96[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2523716	0.98[AFR][1000 genomes];0.98[AMR][1000 genomes];0.94[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs2523721	0.86[AFR][1000 genomes];0.94[AMR][1000 genomes];0.97[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs2523722	0.97[AFR][1000 genomes];0.94[AMR][1000 genomes];0.98[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs28360014	0.81[ASN][1000 genomes]
rs2844776	0.89[AFR][1000 genomes];0.96[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3094132	0.80[AFR][1000 genomes]
rs3094139	0.80[AFR][1000 genomes]
rs3094140	0.80[AFR][1000 genomes]
rs3094614	0.81[AFR][1000 genomes]
rs3130381	0.81[AFR][1000 genomes]
rs3130382	0.81[AFR][1000 genomes]
rs3130383	0.81[AFR][1000 genomes]
rs3130384	0.81[AFR][1000 genomes]
rs3130386	0.81[AFR][1000 genomes]
rs3130388	0.80[AFR][1000 genomes]
rs3132668	0.80[AFR][1000 genomes]
rs3132671	0.81[AFR][1000 genomes]
rs3132673	0.80[AFR][1000 genomes]
rs3132674	0.80[AFR][1000 genomes]
rs55957413	0.81[ASN][1000 genomes]
rs59975149	0.81[ASN][1000 genomes]
rs61154150	0.81[ASN][1000 genomes]
rs885912	0.89[AFR][1000 genomes];0.96[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs916568	0.80[AFR][1000 genomes]
rs916571	0.80[AFR][1000 genomes]
rs971570	1.00[AFR][1000 genomes];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]

No data

Chromatin state (count:124 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:30145000-30173800	Weak transcription	Right Atrium	heart
2	chr6:30150600-30179200	Weak transcription	Pancreatic Islets	Pancreatic Islet
3	chr6:30156800-30174600	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
4	chr6:30158200-30173600	Weak transcription	Psoas Muscle	Psoas
5	chr6:30158400-30179600	Weak transcription	Fetal Brain Male	brain
6	chr6:30167000-30178000	Weak transcription	Fetal Brain Female	brain
7	chr6:30168400-30174000	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
8	chr6:30168600-30174000	Weak transcription	NH-A	brain
9	chr6:30168600-30174000	Weak transcription	NHLF	lung
10	chr6:30168800-30173400	Weak transcription	Gastric	stomach
11	chr6:30168800-30174800	Weak transcription	Rectal Smooth Muscle	rectum
12	chr6:30168800-30179800	Weak transcription	Placenta Amnion	Placenta Amnion
13	chr6:30169000-30173400	Weak transcription	Left Ventricle	heart
14	chr6:30169000-30173800	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
15	chr6:30169000-30173800	Weak transcription	NHDF-Ad	bronchial
16	chr6:30169000-30174000	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
17	chr6:30169000-30174000	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
18	chr6:30169000-30174000	Weak transcription	Muscle Satellite Cultured Cells	--
19	chr6:30169000-30174000	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
20	chr6:30169000-30174000	Weak transcription	Right Ventricle	heart
21	chr6:30169000-30174000	Weak transcription	Skeletal Muscle Female	skeletal muscle
22	chr6:30169000-30174200	Weak transcription	Skeletal Muscle Male	skeletal muscle
23	chr6:30169000-30174400	Weak transcription	Fetal Kidney	kidney
24	chr6:30169000-30174600	Weak transcription	H9 Cell Line	embryonic stem cell
25	chr6:30169000-30174600	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
26	chr6:30169000-30174600	Weak transcription	Colonic Mucosa	Colon
27	chr6:30169000-30174600	Weak transcription	Fetal Lung	lung
28	chr6:30169000-30174800	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
29	chr6:30169000-30175000	Weak transcription	Ovary	ovary
30	chr6:30169000-30175000	Weak transcription	HUVEC	blood vessel
31	chr6:30169000-30175200	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
32	chr6:30169000-30175400	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
33	chr6:30169000-30179800	Weak transcription	Aorta	Aorta
34	chr6:30169200-30173800	Weak transcription	Osteobl	bone
35	chr6:30169400-30174000	Weak transcription	Colon Smooth Muscle	Colon
36	chr6:30169400-30174200	Enhancers	Liver	Liver
37	chr6:30169400-30175200	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
38	chr6:30170000-30173400	Strong transcription	Primary Natural Killer cells fromperipheralblood	blood
39	chr6:30170000-30173600	Weak transcription	Primary T killer memory cells from peripheral blood	blood
40	chr6:30170000-30174000	Weak transcription	Adipose Nuclei	Adipose
41	chr6:30170000-30174600	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
42	chr6:30170200-30173400	Weak transcription	Rectal Mucosa Donor 31	rectum
43	chr6:30170200-30173800	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
44	chr6:30170200-30174400	Weak transcription	HSMMtube	muscle
45	chr6:30170200-30175000	Strong transcription	Fetal Stomach	stomach
46	chr6:30170200-30179200	Weak transcription	Primary hematopoietic stem cells	blood
47	chr6:30170400-30173800	Weak transcription	A549	lung
48	chr6:30170400-30174000	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
49	chr6:30170400-30174600	Weak transcription	H1 Cell Line	embryonic stem cell
50	chr6:30170400-30174600	Weak transcription	HUES64 Cell Line	embryonic stem cell

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links