Variant report

Variant	rs7039768
Chromosome Location	chr9:97820776-97820777
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr9:97815564..97817505-chr9:97820080..97822608,2	MCF-7	breast:
2	chr9:97805980..97807545-chr9:97820488..97822005,2	MCF-7	breast:
3	chr9:97819371..97821085-chr9:97852918..97854464,2	MCF-7	breast:

Extended variants
information (count: 43 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:39)

rs_ID	r²[population]
rs1020962	0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1038092	0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10761371	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10993471	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12553869	0.96[ASN][1000 genomes]
rs12555829	1.00[ASN][1000 genomes]
rs1564235	0.85[AFR][1000 genomes];0.94[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1571896	0.87[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1699499	0.86[EUR][1000 genomes]
rs1871220	0.85[AFR][1000 genomes];0.94[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1888944	0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1888945	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1888946	0.92[AFR][1000 genomes];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2061798	0.82[AFR][1000 genomes];0.88[AMR][1000 genomes];0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2061799	0.95[AFR][1000 genomes];0.94[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs2061801	0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2306207	1.00[ASN][1000 genomes]
rs3739748	0.87[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3780560	0.80[ASN][1000 genomes]
rs4743975	0.87[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4743977	0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4743978	0.85[AFR][1000 genomes];0.94[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4743989	0.80[ASN][1000 genomes]
rs4744421	0.87[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4744429	1.00[ASN][1000 genomes]
rs4744437	0.93[ASN][1000 genomes]
rs4744440	0.86[ASN][1000 genomes]
rs6479596	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs6479597	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs67134693	0.96[ASN][1000 genomes]
rs7046900	0.93[ASN][1000 genomes]
rs72750335	0.96[ASN][1000 genomes]
rs72750346	0.96[ASN][1000 genomes]
rs72750351	0.96[ASN][1000 genomes]
rs72750359	0.96[ASN][1000 genomes]
rs72750367	1.00[ASN][1000 genomes]
rs72750373	1.00[ASN][1000 genomes]
rs73540087	1.00[ASN][1000 genomes]
rs9299427	0.83[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	nsv933919	chr9:97619512-97919344	Weak transcription Transcr. at gene 5' and 3' Genic enhancers Enhancers Flanking Active TSS Strong transcription Flanking Bivalent TSS/Enh Active TSS Bivalent Enhancer ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	293 gene(s)	inside rSNPs	diseases
2	nsv1038106	chr9:97793038-97881416	Weak transcription Strong transcription Bivalent/Poised TSS Enhancers Genic enhancers Transcr. at gene 5' and 3' ZNF genes & repeats Flanking Active TSS Bivalent Enhancer Active TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	274 gene(s)	inside rSNPs	diseases
3	nsv1038523	chr9:97797032-97923774	Strong transcription Enhancers Weak transcription Flanking Active TSS Bivalent Enhancer Active TSS Genic enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	274 gene(s)	inside rSNPs	diseases
4	nsv540175	chr9:97797032-97923774	Weak transcription Flanking Bivalent TSS/Enh Enhancers Strong transcription Bivalent/Poised TSS Genic enhancers Flanking Active TSS Active TSS Transcr. at gene 5' and 3' Bivalent Enhancer ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	274 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:102 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:97811400-97820800	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
2	chr9:97813000-97873000	Weak transcription	K562	blood
3	chr9:97813400-97827200	Genic enhancers	Liver	Liver
4	chr9:97815200-97824400	Weak transcription	Thymus	Thymus
5	chr9:97816000-97823000	Enhancers	Fetal Heart	heart
6	chr9:97816400-97821600	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
7	chr9:97817200-97821000	Transcr. at gene 5' and 3'	A549	lung
8	chr9:97817400-97821200	Enhancers	Primary hematopoietic stem cells	blood
9	chr9:97817400-97821400	Flanking Active TSS	Skeletal Muscle Male	skeletal muscle
10	chr9:97817400-97821600	Enhancers	Fetal Adrenal Gland	Adrenal Gland
11	chr9:97817400-97821800	Enhancers	Cortex derived primary cultured neurospheres	brain
12	chr9:97817600-97821000	Enhancers	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
13	chr9:97817600-97821000	Enhancers	HUES6 Cell Line	embryonic stem cell
14	chr9:97817600-97826000	Genic enhancers	HepG2	liver
15	chr9:97817600-97826400	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Female	--
16	chr9:97817800-97820800	Transcr. at gene 5' and 3'	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
17	chr9:97817800-97820800	Flanking Active TSS	Fetal Stomach	stomach
18	chr9:97817800-97821200	Flanking Active TSS	NHLF	lung
19	chr9:97817800-97821400	Flanking Active TSS	Skeletal Muscle Female	skeletal muscle
20	chr9:97817800-97821600	Flanking Active TSS	Colon Smooth Muscle	Colon
21	chr9:97817800-97821600	Active TSS	Rectal Mucosa Donor 29	rectum
22	chr9:97818000-97821200	Flanking Active TSS	Brain Hippocampus Middle	brain
23	chr9:97818000-97822800	Weak transcription	Sigmoid Colon	Sigmoid Colon
24	chr9:97818000-97824400	Weak transcription	GM12878-XiMat	blood
25	chr9:97818200-97823000	Enhancers	Stomach Mucosa	stomach
26	chr9:97818400-97825000	Weak transcription	iPS-15b Cell Line	embryonic stem cell
27	chr9:97818800-97820800	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
28	chr9:97818800-97820800	Enhancers	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
29	chr9:97818800-97820800	Weak transcription	Fetal Brain Female	brain
30	chr9:97818800-97820800	Enhancers	Lung	lung
31	chr9:97818800-97821200	Enhancers	H9 Derived Neuron Cultured Cells	ES cell derived
32	chr9:97818800-97821200	Enhancers	Left Ventricle	heart
33	chr9:97818800-97830400	Weak transcription	ES-I3 Cell Line	embryonic stem cell
34	chr9:97819000-97820800	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
35	chr9:97819000-97821000	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
36	chr9:97819000-97821400	Genic enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin
37	chr9:97819000-97821400	Enhancers	Brain Germinal Matrix	brain
38	chr9:97819000-97822400	Weak transcription	Primary hematopoietic stem cells short term culture	blood
39	chr9:97819000-97824600	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
40	chr9:97819200-97823400	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
41	chr9:97819200-97824200	Weak transcription	Adipose Nuclei	Adipose
42	chr9:97819200-97824400	Weak transcription	HUVEC	blood vessel
43	chr9:97819400-97821200	Genic enhancers	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
44	chr9:97819400-97821200	Enhancers	Brain Anterior Caudate	brain
45	chr9:97819600-97820800	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
46	chr9:97819600-97820800	Bivalent Enhancer	Foreskin Melanocyte Primary Cells skin01	Skin
47	chr9:97819600-97820800	Active TSS	Duodenum Smooth Muscle	Duodenum
48	chr9:97819600-97820800	Weak transcription	Spleen	Spleen
49	chr9:97819600-97821800	Enhancers	Gastric	stomach
50	chr9:97819600-97824200	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived

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