Variant report

Variant	rs793657
Chromosome Location	chr6:24402212-24402213
allele	C/T
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	ZEB1	chr6:24402209-24403982	HepG2	liver:	n/a	chr6:24403031-24403042
2	POLR2A	chr6:24401543-24404415	H1-hESC	embryonic stem cell:	n/a	n/a

No.	Distal block	Cell Line	Cell type
1	chr6:24401784..24404907-chr6:24494976..24497958,4	MCF-7	breast:
2	chr6:24399777..24402402-chr6:24720450..24723229,2	MCF-7	breast:
3	chr6:24400135..24402578-chr6:24776210..24779187,2	K562	blood:

Variant related genes	Relation type
MRS2	TF binding region
ENSG00000112294	Chromatin interaction
ENSG00000112308	Chromatin interaction
ENSG00000112293	Chromatin interaction
ENSG00000112312	Chromatin interaction

Extended variants
information (count: 18 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:17)

rs_ID	r²[population]
rs1056283	0.82[ASN][1000 genomes]
rs1277343	0.86[ASN][1000 genomes]
rs1277346	1.00[AFR][1000 genomes];0.99[AMR][1000 genomes];0.98[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs1321819	0.83[ASN][1000 genomes]
rs1742280	0.82[AFR][1000 genomes];0.93[ASN][1000 genomes]
rs1772253	0.91[AFR][1000 genomes];0.98[ASN][1000 genomes]
rs2753922	0.97[AFR][1000 genomes];0.98[ASN][1000 genomes]
rs2793422	0.97[AFR][1000 genomes];0.98[ASN][1000 genomes]
rs2876672	0.86[ASN][1000 genomes]
rs6920147	0.82[ASN][1000 genomes]
rs6936856	0.83[ASN][1000 genomes]
rs7769012	0.82[ASN][1000 genomes]
rs793652	0.97[AFR][1000 genomes];0.85[AMR][1000 genomes];0.83[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs793654	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs793679	0.85[AFR][1000 genomes];0.97[ASN][1000 genomes]
rs793690	0.82[AFR][1000 genomes];0.93[ASN][1000 genomes]
rs9393554	0.82[ASN][1000 genomes]

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

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1026638	chr6:24347972-24475300	Strong transcription Weak transcription Active TSS Flanking Bivalent TSS/Enh Flanking Active TSS Enhancers Bivalent Enhancer Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region miRNA target site	9 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:35 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:24400200-24402800	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
2	chr6:24400600-24402400	Weak transcription	Breast Myoepithelial Primary Cells	Breast
3	chr6:24400600-24402800	Enhancers	K562	blood
4	chr6:24401000-24402400	Enhancers	HepG2	liver
5	chr6:24401000-24402600	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
6	chr6:24401000-24402600	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
7	chr6:24401000-24402800	Flanking Active TSS	HUES6 Cell Line	embryonic stem cell
8	chr6:24401200-24402600	Enhancers	H9 Cell Line	embryonic stem cell
9	chr6:24401200-24402600	Enhancers	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
10	chr6:24401200-24402600	Enhancers	ES-UCSF4 Cell Line	embryonic stem cell
11	chr6:24401200-24402600	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
12	chr6:24401200-24402600	Enhancers	Hela-S3	cervix
13	chr6:24401200-24402800	Enhancers	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
14	chr6:24401200-24402800	Flanking Active TSS	iPS-18 Cell Line	embryonic stem cell
15	chr6:24401200-24402800	Flanking Active TSS	iPS-20b Cell Line	embryonic stem cell
16	chr6:24401200-24402800	Enhancers	Fetal Intestine Large	intestine
17	chr6:24401200-24402800	Enhancers	Placenta	Placenta
18	chr6:24401200-24403000	Flanking Active TSS	HUES48 Cell Line	embryonic stem cell
19	chr6:24401200-24403000	Flanking Active TSS	HUES64 Cell Line	embryonic stem cell
20	chr6:24401400-24402400	Weak transcription	Fetal Kidney	kidney
21	chr6:24401400-24402400	Weak transcription	NHEK	skin
22	chr6:24401400-24402600	Enhancers	Ovary	ovary
23	chr6:24401800-24402800	Flanking Active TSS	iPS-15b Cell Line	embryonic stem cell
24	chr6:24401800-24403000	Enhancers	H1 Derived Mesenchymal Stem Cells	ES cell derived
25	chr6:24401800-24405400	Active TSS	ES-I3 Cell Line	embryonic stem cell
26	chr6:24402000-24402400	Enhancers	H1 Cell Line	embryonic stem cell
27	chr6:24402000-24402800	Enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin
28	chr6:24402000-24402800	Enhancers	Fetal Heart	heart
29	chr6:24402000-24402800	Weak transcription	Psoas Muscle	Psoas
30	chr6:24402000-24403000	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
31	chr6:24402200-24402400	Enhancers	H9 Derived Neuron Cultured Cells	ES cell derived
32	chr6:24402200-24402400	Enhancers	Dnd41	blood
33	chr6:24402200-24402600	Flanking Active TSS	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
34	chr6:24402200-24402600	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
35	chr6:24402200-24403000	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links