Variant report

Variant	rs2092762
Chromosome Location	chr6:144007727-144007728
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr6:143996710..144001910-chr6:144005817..144014875,10	MCF-7	breast:
2	chr6:143998001..144000467-chr6:144005512..144008352,2	MCF-7	breast:
3	chr6:144004544..144009046-chr6:144017005..144020189,4	K562	blood:
4	chr6:143999648..144001739-chr6:144006166..144008073,2	K562	blood:

Variant related genes	Relation type
ENSG00000112419	Chromatin interaction

Extended variants
information (count: 56 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:54)

rs_ID	r²[population]
rs11155318	0.81[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs11155320	0.93[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs11962519	0.93[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs12530310	0.86[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs13190772	0.92[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs13191259	0.92[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs13204954	0.97[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs13220613	0.91[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs2024693	0.81[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs2051008	0.90[ASN][1000 genomes]
rs2474150	0.88[ASN][1000 genomes]
rs3924968	0.95[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs4299843	0.85[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs4523103	0.96[EUR][1000 genomes]
rs6570571	0.97[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs6570572	0.94[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs6570573	0.94[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6913687	0.88[AMR][1000 genomes];0.96[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs6914940	0.88[AMR][1000 genomes];0.95[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs6916245	0.87[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs6931556	0.82[AMR][1000 genomes];0.96[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs7450663	0.94[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs7738179	0.92[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7740883	0.85[ASN][1000 genomes]
rs7741628	0.82[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs7741901	0.96[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs7741998	0.96[EUR][1000 genomes]
rs7747182	0.95[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs7758298	0.91[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7760178	0.84[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs7762598	0.91[AMR][1000 genomes];0.97[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs7764549	0.95[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs7766091	0.92[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs7770812	0.91[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7772898	0.89[AMR][1000 genomes];0.97[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs910419	0.85[AMR][1000 genomes];0.93[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs9321933	0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs9321934	0.84[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs9376773	0.82[AMR][1000 genomes];0.95[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs9376774	0.84[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs9376775	0.84[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs9376777	0.97[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs9390127	0.87[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs9399454	0.95[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs9399456	0.88[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs9399459	0.81[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs9403520	0.82[AMR][1000 genomes];0.95[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs9403522	0.80[AMR][1000 genomes];0.98[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs9484794	0.96[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs9496718	0.80[AMR][1000 genomes];0.92[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs9496721	0.91[AMR][1000 genomes];0.92[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs9496729	0.91[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9496734	0.87[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs9496735	0.92[AMR][1000 genomes];0.86[EUR][1000 genomes];0.94[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:2 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	esv2758084	chr6:143916621-144079976	Weak transcription Enhancers Genic enhancers Strong transcription Flanking Active TSS ZNF genes & repeats Bivalent Enhancer Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases
2	esv2759476	chr6:143916621-144079976	Enhancers Weak transcription Flanking Bivalent TSS/Enh Strong transcription Flanking Active TSS Active TSS ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:53 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:144000600-144007800	Weak transcription	H9 Cell Line	embryonic stem cell
2	chr6:144000600-144008800	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
3	chr6:144000800-144008000	Weak transcription	Monocytes-CD14+_RO01746	blood
4	chr6:144001800-144007800	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
5	chr6:144001800-144008000	Weak transcription	Skeletal Muscle Female	skeletal muscle
6	chr6:144001800-144012200	Weak transcription	Primary neutrophils fromperipheralblood	blood
7	chr6:144002000-144007800	Weak transcription	Aorta	Aorta
8	chr6:144002000-144007800	Weak transcription	NHDF-Ad	bronchial
9	chr6:144002000-144008400	Weak transcription	Placenta	Placenta
10	chr6:144002000-144013000	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
11	chr6:144002200-144007800	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
12	chr6:144002200-144008000	Weak transcription	Stomach Smooth Muscle	stomach
13	chr6:144002400-144007800	Weak transcription	Osteobl	bone
14	chr6:144002800-144011200	Weak transcription	Hela-S3	cervix
15	chr6:144003000-144008000	Weak transcription	Right Atrium	heart
16	chr6:144003400-144008000	Weak transcription	iPS-18 Cell Line	embryonic stem cell
17	chr6:144003600-144007800	Weak transcription	HUES48 Cell Line	embryonic stem cell
18	chr6:144003600-144007800	Weak transcription	Lung	lung
19	chr6:144003600-144008000	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
20	chr6:144003600-144009800	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
21	chr6:144003600-144015000	Weak transcription	Esophagus	oesophagus
22	chr6:144003600-144015000	Weak transcription	Gastric	stomach
23	chr6:144003800-144008800	Weak transcription	Fetal Stomach	stomach
24	chr6:144004400-144007800	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
25	chr6:144004400-144008000	Weak transcription	iPS-20b Cell Line	embryonic stem cell
26	chr6:144004400-144010000	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
27	chr6:144004400-144013000	Weak transcription	Fetal Kidney	kidney
28	chr6:144004600-144008000	Weak transcription	HUES64 Cell Line	embryonic stem cell
29	chr6:144004800-144007800	Weak transcription	H1 Cell Line	embryonic stem cell
30	chr6:144004800-144007800	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
31	chr6:144004800-144007800	Weak transcription	Left Ventricle	heart
32	chr6:144005000-144008000	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
33	chr6:144005000-144009000	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
34	chr6:144005000-144020400	Weak transcription	Fetal Muscle Trunk	muscle
35	chr6:144005600-144008000	Weak transcription	Psoas Muscle	Psoas
36	chr6:144005600-144016000	Weak transcription	Primary hematopoietic stem cells short term culture	blood
37	chr6:144005800-144007800	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
38	chr6:144005800-144009000	Weak transcription	Fetal Muscle Leg	muscle
39	chr6:144005800-144015200	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
40	chr6:144006000-144007800	Weak transcription	Primary monocytes fromperipheralblood	blood
41	chr6:144006000-144008000	Weak transcription	Duodenum Smooth Muscle	Duodenum
42	chr6:144006000-144008600	Weak transcription	Fetal Lung	lung
43	chr6:144006000-144009000	Weak transcription	Right Ventricle	heart
44	chr6:144006000-144009800	Weak transcription	Duodenum Mucosa	Duodenum
45	chr6:144006000-144011000	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
46	chr6:144006000-144013200	Weak transcription	Small Intestine	intestine
47	chr6:144006000-144017800	Weak transcription	Fetal Heart	heart
48	chr6:144006800-144007800	Weak transcription	Rectal Mucosa Donor 29	rectum
49	chr6:144006800-144008000	Strong transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
50	chr6:144007000-144008000	Weak transcription	Liver	Liver

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links