Variant report

Variant	rs2285799
Chromosome Location	chr6:30257693-30257694
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Transcrition factor	Chromosome Location	Cell Line	Cell type	Cell Stage	Matched TF binding sites
1	POLR2A	chr6:30257545-30257947	K562	blood:	n/a	n/a
2	POLR2A	chr6:30257362-30257713	PFSK-1	brain:	n/a	n/a
3	POLR2A	chr6:30257570-30257791	Hela-S3	cervix:	n/a	n/a
4	POLR2A	chr6:30256760-30258125	HepG2	liver:	n/a	n/a
5	GTF2F1	chr6:30257560-30257819	H1-hESC	embryonic stem cell:	n/a	n/a
6	STAT3	chr6:30257600-30257792	MCF10A-Er-Src	breast:	n/a	n/a

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr6:30256199..30257917-chr6:30272778..30275298,2	MCF-7	breast:
2	chr6:30254447..30256446-chr6:30257313..30259885,2	K562	blood:

Variant related genes	Relation type
HCG18	TF binding region
ENSG00000231074	Chromatin interaction

Extended variants
information (count: 74 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:74)

rs_ID	r²[population]
rs10484551	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs16897337	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs16897339	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17188212	0.83[ASN][1000 genomes]
rs17188470	0.92[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs17194565	0.83[ASN][1000 genomes]
rs17194767	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17194789	0.92[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs17194852	1.00[EUR][1000 genomes]
rs17194859	0.82[EUR][1000 genomes]
rs2021363	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2021364	0.91[ASN][1000 genomes]
rs2285794	0.82[AFR][1000 genomes];0.87[AMR][1000 genomes];0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2894146	1.00[AFR][1000 genomes];0.91[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3094070	1.00[ASN][1000 genomes]
rs3094071	1.00[ASN][1000 genomes]
rs3094072	1.00[ASN][1000 genomes]
rs3094073	1.00[ASN][1000 genomes]
rs3094074	1.00[ASN][1000 genomes]
rs3094077	1.00[ASN][1000 genomes]
rs3094630	1.00[ASN][1000 genomes]
rs3094632	1.00[ASN][1000 genomes]
rs3129697	1.00[ASN][1000 genomes]
rs3129699	1.00[ASN][1000 genomes]
rs3129700	1.00[ASN][1000 genomes]
rs3129701	1.00[ASN][1000 genomes]
rs3129702	1.00[ASN][1000 genomes]
rs3129703	0.95[ASN][1000 genomes]
rs3129705	1.00[ASN][1000 genomes]
rs3129706	1.00[ASN][1000 genomes]
rs3129707	1.00[ASN][1000 genomes]
rs3129708	1.00[ASN][1000 genomes]
rs3129831	1.00[ASN][1000 genomes]
rs3129832	1.00[ASN][1000 genomes]
rs3129835	1.00[ASN][1000 genomes]
rs3130398	1.00[ASN][1000 genomes]
rs3130400	1.00[ASN][1000 genomes]
rs3130401	1.00[ASN][1000 genomes]
rs3130403	1.00[ASN][1000 genomes]
rs3130404	1.00[ASN][1000 genomes]
rs3130405	0.87[ASN][1000 genomes]
rs3132655	1.00[ASN][1000 genomes]
rs3132656	1.00[ASN][1000 genomes]
rs3132657	1.00[ASN][1000 genomes]
rs3132658	1.00[ASN][1000 genomes]
rs3132659	1.00[ASN][1000 genomes]
rs3778625	0.91[ASN][1000 genomes]
rs3800332	0.88[AFR][1000 genomes];0.91[AMR][1000 genomes];0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4711210	0.83[ASN][1000 genomes]
rs4711212	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4713302	0.83[ASN][1000 genomes]
rs4713304	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4713306	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4713309	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4713310	0.88[AFR][1000 genomes];0.91[AMR][1000 genomes];0.92[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs4713311	1.00[AFR][1000 genomes];0.91[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4713312	0.91[ASN][1000 genomes]
rs4713313	0.91[ASN][1000 genomes]
rs4713314	0.83[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs56707099	0.91[ASN][1000 genomes]
rs56725475	0.83[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs56812420	0.86[ASN][1000 genomes]
rs56847466	0.83[AMR][1000 genomes];0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs57686281	0.83[ASN][1000 genomes]
rs57708012	0.89[ASN][1000 genomes]
rs57715221	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs58226684	0.83[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs59046803	0.83[AMR][1000 genomes];0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs60925525	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs61017790	0.83[AMR][1000 genomes];0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs61619108	0.91[ASN][1000 genomes]
rs9261629	1.00[ASN][1000 genomes]
rs9261630	1.00[ASN][1000 genomes]
rs9261636	1.00[ASN][1000 genomes]

No data

Chromatin state (count:125 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:30247600-30262400	ZNF genes & repeats	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
2	chr6:30252200-30262600	ZNF genes & repeats	iPS-20b Cell Line	embryonic stem cell
3	chr6:30253000-30259400	Weak transcription	Psoas Muscle	Psoas
4	chr6:30253600-30259000	ZNF genes & repeats	ES-UCSF4 Cell Line	embryonic stem cell
5	chr6:30255200-30259800	Weak transcription	Primary T helper naive cells from peripheral blood	blood
6	chr6:30255200-30261000	Weak transcription	Fetal Brain Male	brain
7	chr6:30255400-30259200	Weak transcription	HUVEC	blood vessel
8	chr6:30255600-30258400	ZNF genes & repeats	Primary hematopoietic stem cells G-CSF-mobilized Female	--
9	chr6:30255600-30259600	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
10	chr6:30255600-30261200	Weak transcription	Stomach Mucosa	stomach
11	chr6:30255600-30264000	Strong transcription	Duodenum Smooth Muscle	Duodenum
12	chr6:30255800-30258000	ZNF genes & repeats	Primary hematopoietic stem cells	blood
13	chr6:30255800-30258400	ZNF genes & repeats	Primary hematopoietic stem cells G-CSF-mobilized Male	--
14	chr6:30255800-30260200	ZNF genes & repeats	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
15	chr6:30255800-30261400	Weak transcription	Primary T killer memory cells from peripheral blood	blood
16	chr6:30255800-30264400	Strong transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
17	chr6:30256000-30258400	ZNF genes & repeats	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
18	chr6:30256000-30260200	ZNF genes & repeats	H1 Cell Line	embryonic stem cell
19	chr6:30256000-30263200	Strong transcription	HSMMtube	muscle
20	chr6:30256000-30270200	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
21	chr6:30256200-30258000	ZNF genes & repeats	Ovary	ovary
22	chr6:30256200-30258400	ZNF genes & repeats	H9 Cell Line	embryonic stem cell
23	chr6:30256200-30258400	ZNF genes & repeats	H9 Derived Neuron Cultured Cells	ES cell derived
24	chr6:30256200-30258400	ZNF genes & repeats	Foreskin Melanocyte Primary Cells skin03	Skin
25	chr6:30256200-30258400	Strong transcription	Brain Dorsolateral Prefrontal Cortex	brain
26	chr6:30256200-30258600	Strong transcription	Primary T helper cells fromperipheralblood	blood
27	chr6:30256200-30259200	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
28	chr6:30256200-30259800	ZNF genes & repeats	HUES48 Cell Line	embryonic stem cell
29	chr6:30256200-30259800	ZNF genes & repeats	iPS-18 Cell Line	embryonic stem cell
30	chr6:30256200-30261200	ZNF genes & repeats	HUES64 Cell Line	embryonic stem cell
31	chr6:30256200-30262800	ZNF genes & repeats	HUES6 Cell Line	embryonic stem cell
32	chr6:30256200-30263800	Strong transcription	Fetal Adrenal Gland	Adrenal Gland
33	chr6:30256200-30264000	Strong transcription	Brain Anterior Caudate	brain
34	chr6:30256200-30264800	Strong transcription	Primary B cells from peripheral blood	blood
35	chr6:30256200-30292000	Weak transcription	Fetal Heart	heart
36	chr6:30256400-30257800	ZNF genes & repeats	Liver	Liver
37	chr6:30256400-30258000	Strong transcription	Brain Hippocampus Middle	brain
38	chr6:30256400-30258200	Strong transcription	Brain Substantia Nigra	brain
39	chr6:30256400-30258200	ZNF genes & repeats	Monocytes-CD14+_RO01746	blood
40	chr6:30256400-30258400	ZNF genes & repeats	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
41	chr6:30256400-30258400	ZNF genes & repeats	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
42	chr6:30256400-30258400	ZNF genes & repeats	IMR90 fetal lung fibroblasts Cell Line	lung
43	chr6:30256400-30258400	ZNF genes & repeats	Aorta	Aorta
44	chr6:30256400-30258400	ZNF genes & repeats	Fetal Intestine Small	intestine
45	chr6:30256400-30258400	ZNF genes & repeats	Lung	lung
46	chr6:30256400-30258400	ZNF genes & repeats	Dnd41	blood
47	chr6:30256400-30258600	Strong transcription	Foreskin Fibroblast Primary Cells skin02	Skin
48	chr6:30256400-30263200	Strong transcription	Brain Inferior Temporal Lobe	brain
49	chr6:30256400-30263200	Strong transcription	Thymus	Thymus
50	chr6:30256400-30263400	Strong transcription	Left Ventricle	heart

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links