Variant report

Variant	rs9844184
Chromosome Location	chr3:150132039-150132040
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr3:150003421..150005859-chr3:150130748..150133736,2	MCF-7	breast:
2	chr3:150129965..150132120-chr3:150321076..150323055,2	MCF-7	breast:
3	chr3:149966884..149969452-chr3:150130609..150132454,2	MCF-7	breast:
4	chr3:150101832..150103393-chr3:150130176..150133046,2	MCF-7	breast:
5	chr3:150130787..150132755-chr3:150164402..150166675,2	MCF-7	breast:
6	chr3:150130662..150134020-chr3:150134493..150137721,4	MCF-7	breast:
7	chr3:150131692..150134159-chr3:150200566..150202445,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000198843	Chromatin interaction
ENSG00000243550	Chromatin interaction

Extended variants
information (count: 25 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:21)

rs_ID	r²[population]
rs10154963	0.84[AMR][1000 genomes];0.83[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs10804747	0.89[JPT][hapmap];0.86[ASN][1000 genomes]
rs11927604	0.82[YRI][hapmap]
rs13066779	1.00[CHB][hapmap];1.00[JPT][hapmap];0.95[YRI][hapmap];0.96[AFR][1000 genomes];0.96[AMR][1000 genomes];0.99[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs1450343	1.00[CHB][hapmap];1.00[JPT][hapmap];0.94[AMR][1000 genomes];0.99[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs1463229	0.95[CHB][hapmap];0.95[JPT][hapmap];0.94[AMR][1000 genomes];0.99[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs1466131	0.86[ASN][1000 genomes]
rs1562787	0.95[JPT][hapmap];0.86[ASN][1000 genomes]
rs2903834	0.87[CHB][hapmap];0.81[JPT][hapmap]
rs4323025	1.00[CHB][hapmap];1.00[JPT][hapmap];0.86[AFR][1000 genomes];0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs6414375	1.00[CHB][hapmap];1.00[JPT][hapmap];0.94[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs6763422	0.93[AMR][1000 genomes];0.95[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs6770312	0.82[AFR][1000 genomes];0.90[AMR][1000 genomes];0.96[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs6778948	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs6785158	0.81[ASN][1000 genomes]
rs6803715	0.85[AMR][1000 genomes];0.81[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs7430585	0.89[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7642773	0.82[CHB][hapmap];0.91[JPT][hapmap];0.85[YRI][hapmap];0.85[AFR][1000 genomes];0.92[AMR][1000 genomes];0.97[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs9843097	0.85[AMR][1000 genomes];0.89[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs9855441	0.84[ASN][1000 genomes]
rs9881867	0.95[JPT][hapmap];0.88[AMR][1000 genomes];0.97[EUR][1000 genomes];0.86[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:4 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv829755	chr3:149992023-150156001	Enhancers Weak transcription Transcr. at gene 5' and 3' Genic enhancers Flanking Active TSS Active TSS Strong transcription ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	49 gene(s)	inside rSNPs	diseases
2	esv1828464	chr3:150096071-150149868	Enhancers Bivalent/Poised TSS Active TSS Weak transcription Flanking Active TSS Genic enhancers Transcr. at gene 5' and 3' Strong transcription ZNF genes & repeats Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	47 gene(s)	inside rSNPs	diseases
3	nsv877645	chr3:150103135-150212698	Weak transcription Enhancers Flanking Active TSS Genic enhancers Strong transcription Transcr. at gene 5' and 3' Active TSS ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	48 gene(s)	inside rSNPs	diseases
4	esv1799287	chr3:150125721-150147118	Flanking Active TSS Transcr. at gene 5' and 3' Weak transcription Enhancers Active TSS Strong transcription Genic enhancers ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	46 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:122 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:150124600-150132200	Active TSS	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
2	chr3:150124600-150133000	Active TSS	Fetal Kidney	kidney
3	chr3:150124600-150133000	Active TSS	Right Atrium	heart
4	chr3:150124800-150133600	Active TSS	Stomach Smooth Muscle	stomach
5	chr3:150125000-150132400	Active TSS	Fetal Stomach	stomach
6	chr3:150125000-150132600	Active TSS	HSMMtube	muscle
7	chr3:150125000-150132800	Active TSS	Fetal Intestine Large	intestine
8	chr3:150125000-150133200	Active TSS	Breast Myoepithelial Primary Cells	Breast
9	chr3:150125000-150137400	Active TSS	GM12878-XiMat	blood
10	chr3:150125200-150132400	Active TSS	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
11	chr3:150125200-150132400	Active TSS	Foreskin Melanocyte Primary Cells skin01	Skin
12	chr3:150125400-150132400	Active TSS	ES-I3 Cell Line	embryonic stem cell
13	chr3:150125600-150132200	Active TSS	Fetal Thymus	thymus
14	chr3:150127200-150132400	Active TSS	Duodenum Smooth Muscle	Duodenum
15	chr3:150128400-150132600	Flanking Active TSS	Primary hematopoietic stem cells G-CSF-mobilized Male	--
16	chr3:150128600-150133400	Transcr. at gene 5' and 3'	HSMM	muscle
17	chr3:150128800-150132600	Flanking Active TSS	Monocytes-CD14+_RO01746	blood
18	chr3:150128800-150133400	Active TSS	Right Ventricle	heart
19	chr3:150129200-150132200	Weak transcription	Pancreas	Pancrea
20	chr3:150129200-150132800	Active TSS	Fetal Muscle Leg	muscle
21	chr3:150129200-150133200	Active TSS	Foreskin Fibroblast Primary Cells skin01	Skin
22	chr3:150129200-150133800	Active TSS	Foreskin Fibroblast Primary Cells skin02	Skin
23	chr3:150129400-150132400	Enhancers	Primary neutrophils fromperipheralblood	blood
24	chr3:150129400-150133200	Active TSS	IMR90 fetal lung fibroblasts Cell Line	lung
25	chr3:150129400-150133400	Weak transcription	Spleen	Spleen
26	chr3:150129400-150134400	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
27	chr3:150129600-150132400	Active TSS	Muscle Satellite Cultured Cells	--
28	chr3:150129800-150132800	Active TSS	Foreskin Keratinocyte Primary Cells skin03	Skin
29	chr3:150130600-150132200	Transcr. at gene 5' and 3'	Primary B cells from cord blood	blood
30	chr3:150130600-150132800	Transcr. at gene 5' and 3'	Dnd41	blood
31	chr3:150130600-150133600	Transcr. at gene 5' and 3'	H9 Derived Neuron Cultured Cells	ES cell derived
32	chr3:150130600-150134000	Transcr. at gene 5' and 3'	Primary T helper cells PMA-I stimulated	--
33	chr3:150131000-150132200	Flanking Active TSS	iPS-18 Cell Line	embryonic stem cell
34	chr3:150131000-150132200	Active TSS	Ovary	ovary
35	chr3:150131000-150132400	Active TSS	Aorta	Aorta
36	chr3:150131000-150132600	Active TSS	Brain Dorsolateral Prefrontal Cortex	brain
37	chr3:150131000-150133200	Weak transcription	Esophagus	oesophagus
38	chr3:150131000-150133200	Weak transcription	Left Ventricle	heart
39	chr3:150131000-150133200	Weak transcription	Small Intestine	intestine
40	chr3:150131000-150133400	Active TSS	Psoas Muscle	Psoas
41	chr3:150131000-150133400	Weak transcription	Sigmoid Colon	Sigmoid Colon
42	chr3:150131000-150133800	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
43	chr3:150131000-150136000	Strong transcription	Primary Natural Killer cells fromperipheralblood	blood
44	chr3:150131000-150138600	Weak transcription	Lung	lung
45	chr3:150131000-150152000	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
46	chr3:150131000-150166000	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
47	chr3:150131200-150132200	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
48	chr3:150131200-150132200	Active TSS	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
49	chr3:150131200-150132200	Active TSS	Brain Inferior Temporal Lobe	brain
50	chr3:150131200-150132200	Active TSS	Rectal Mucosa Donor 29	rectum

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links