Variant report

Variant	rs7742129
Chromosome Location	chr6:144009970-144009971
allele	A/G
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	chr6:144005095..144007441-chr6:144008353..144010500,3	K562	blood:
3	chr6:144009959..144011502-chr6:144013449..144016270,2	K562	blood:
4	chr6:144002192..144005187-chr6:144008261..144010591,3	MCF-7	breast:

Variant related genes	Relation type
ENSG00000112419	Chromatin interaction

Extended variants
information (count: 14 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:12)

rs_ID	r²[population]
rs10046128	0.90[YRI][hapmap];0.90[AFR][1000 genomes]
rs13194278	0.86[YRI][hapmap]
rs6914303	0.89[AMR][1000 genomes]
rs7738603	0.95[YRI][hapmap];0.93[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9484787	0.89[AMR][1000 genomes]
rs9484789	0.89[AMR][1000 genomes]
rs9484791	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9484792	0.86[YRI][hapmap]
rs9496722	0.89[AMR][1000 genomes]
rs9496727	0.87[AFR][1000 genomes]
rs9496730	0.92[AFR][1000 genomes]
rs9496737	0.90[AMR][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:78 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:144001800-144012200	Weak transcription	Primary neutrophils fromperipheralblood	blood
2	chr6:144002000-144013000	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
3	chr6:144002800-144011200	Weak transcription	Hela-S3	cervix
4	chr6:144003600-144015000	Weak transcription	Esophagus	oesophagus
5	chr6:144003600-144015000	Weak transcription	Gastric	stomach
6	chr6:144004400-144010000	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
7	chr6:144004400-144013000	Weak transcription	Fetal Kidney	kidney
8	chr6:144005000-144020400	Weak transcription	Fetal Muscle Trunk	muscle
9	chr6:144005600-144016000	Weak transcription	Primary hematopoietic stem cells short term culture	blood
10	chr6:144005800-144015200	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
11	chr6:144006000-144011000	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
12	chr6:144006000-144013200	Weak transcription	Small Intestine	intestine
13	chr6:144006000-144017800	Weak transcription	Fetal Heart	heart
14	chr6:144007800-144011800	Enhancers	Left Ventricle	heart
15	chr6:144007800-144013200	Enhancers	HepG2	liver
16	chr6:144007800-144013600	Enhancers	H1 Cell Line	embryonic stem cell
17	chr6:144008000-144010200	Enhancers	Right Atrium	heart
18	chr6:144008000-144011200	Enhancers	HSMMtube	muscle
19	chr6:144008000-144014000	Enhancers	iPS-15b Cell Line	embryonic stem cell
20	chr6:144008200-144010000	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
21	chr6:144008200-144012000	Weak transcription	Liver	Liver
22	chr6:144008400-144012800	Weak transcription	Fetal Intestine Large	intestine
23	chr6:144008600-144010400	Enhancers	NHDF-Ad	bronchial
24	chr6:144008600-144011600	Enhancers	Psoas Muscle	Psoas
25	chr6:144008600-144015000	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
26	chr6:144008800-144010200	Weak transcription	HUES6 Cell Line	embryonic stem cell
27	chr6:144008800-144010200	Strong transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
28	chr6:144008800-144010400	Enhancers	iPS DF 6.9 Cell Line	embryonic stem cell
29	chr6:144008800-144011400	Strong transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
30	chr6:144008800-144011600	Enhancers	Primary T helper memory cells from peripheral blood 2	blood
31	chr6:144008800-144015000	Weak transcription	NHEK	skin
32	chr6:144009000-144010000	Weak transcription	H9 Cell Line	embryonic stem cell
33	chr6:144009000-144010200	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
34	chr6:144009000-144010200	Enhancers	Duodenum Smooth Muscle	Duodenum
35	chr6:144009000-144010400	Strong transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
36	chr6:144009000-144010400	Genic enhancers	Fetal Muscle Leg	muscle
37	chr6:144009000-144011200	Weak transcription	Fetal Lung	lung
38	chr6:144009000-144011200	Weak transcription	HSMM	muscle
39	chr6:144009000-144011400	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
40	chr6:144009000-144011600	Enhancers	Right Ventricle	heart
41	chr6:144009000-144013400	Weak transcription	Rectal Mucosa Donor 31	rectum
42	chr6:144009000-144015200	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
43	chr6:144009200-144010000	Weak transcription	Sigmoid Colon	Sigmoid Colon
44	chr6:144009200-144010200	Genic enhancers	Placenta	Placenta
45	chr6:144009200-144010200	Enhancers	Spleen	Spleen
46	chr6:144009200-144010400	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
47	chr6:144009200-144010400	Enhancers	Ovary	ovary
48	chr6:144009200-144010600	Weak transcription	ES-I3 Cell Line	embryonic stem cell
49	chr6:144009200-144011200	Weak transcription	NH-A	brain
50	chr6:144009200-144011600	Enhancers	Aorta	Aorta

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links