Variant report

Variant	rs11788035
Chromosome Location	chr9:96711090-96711091
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

TF binding
region (count:0)
CpG islands
(count:0)
Chromatin interactive
region (count:8)
LncRNA
region (count:0)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

No data

(count:8 , 50 per page) page: 1

No.	Distal block	Cell Line	Cell type
1	chr9:96710465..96712948-chr9:96713592..96715312,2	MCF-7	breast:
2	chr9:96443001..96444886-chr9:96710905..96713769,2	MCF-7	breast:
3	chr9:96710015..96712729-chr9:96712737..96714256,2	MCF-7	breast:
4	chr9:96701424..96703213-chr9:96710660..96713568,2	MCF-7	breast:
5	chr9:96709646..96715968-chr9:96715980..96721050,10	MCF-7	breast:
6	chr9:96705963..96707541-chr9:96709329..96711419,2	MCF-7	breast:
7	chr9:96699994..96702903-chr9:96710019..96711705,2	MCF-7	breast:
8	chr9:96338597..96340419-chr9:96710594..96713429,2	MCF-7	breast:

No data

Variant related genes	Relation type
ENSG00000197724	Chromatin interaction
ENSG00000235601	Chromatin interaction
ENSG00000131668	Chromatin interaction

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

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

rs_ID	r²[population]
rs1057713	0.96[CEU][hapmap];0.89[CHB][hapmap];0.82[JPT][hapmap];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs10821273	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.92[AFR][1000 genomes];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs10821274	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11789015	0.92[YRI][hapmap];0.85[AFR][1000 genomes]
rs11999521	0.96[AMR][1000 genomes];0.99[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs11999551	0.93[AMR][1000 genomes];0.99[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs12005806	0.93[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs1320546	0.96[CEU][hapmap];0.89[CHB][hapmap];0.82[JPT][hapmap];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs13283836	0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs13291289	0.96[AMR][1000 genomes];0.99[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs1933680	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs1933681	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs1933682	0.82[AMR][1000 genomes]
rs2095778	0.88[AFR][1000 genomes];0.94[AMR][1000 genomes];0.88[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs35001304	0.84[AFR][1000 genomes];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4437716	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.91[AFR][1000 genomes];0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs4563951	0.96[CEU][hapmap];0.90[CHB][hapmap];0.83[JPT][hapmap];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs56285369	0.80[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs7034685	1.00[AFR][1000 genomes];0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs7858520	0.86[AFR][1000 genomes]
rs7872123	0.96[CEU][hapmap];0.89[CHB][hapmap];0.82[YRI][hapmap];0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];0.84[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	nsv893589	chr9:96624645-96884544	Enhancers Active TSS Flanking Active TSS Bivalent Enhancer Weak transcription Strong transcription Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent/Poised TSS Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	18 gene(s)	inside rSNPs	diseases
2	nsv1035418	chr9:96647940-96711409	Enhancers Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Flanking Active TSS ZNF genes & repeats Weak transcription Genic enhancers Active TSS Strong transcription	Chromatin interactive region	5 gene(s)	inside rSNPs	diseases
3	nsv824993	chr9:96699362-96725105	Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Active TSS Enhancers Flanking Active TSS Weak transcription Transcr. at gene 5' and 3' Strong transcription ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
4	nsv893590	chr9:96701287-96729129	Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS Active TSS Enhancers Flanking Active TSS Weak transcription ZNF genes & repeats Genic enhancers Strong transcription Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:56 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:96708600-96713000	Weak transcription	Gastric	stomach
2	chr9:96709000-96713200	Weak transcription	Right Atrium	heart
3	chr9:96710200-96712400	Bivalent/Poised TSS	H9 Cell Line	embryonic stem cell
4	chr9:96710400-96711200	Flanking Bivalent TSS/Enh	iPS-18 Cell Line	embryonic stem cell
5	chr9:96710400-96711200	Bivalent Enhancer	Skeletal Muscle Male	skeletal muscle
6	chr9:96710400-96711400	Bivalent Enhancer	Primary T helper naive cells fromperipheralblood	blood
7	chr9:96710400-96711400	Bivalent Enhancer	Foreskin Fibroblast Primary Cells skin02	Skin
8	chr9:96710400-96712000	Bivalent Enhancer	Foreskin Melanocyte Primary Cells skin01	Skin
9	chr9:96710400-96712200	Bivalent/Poised TSS	HUES64 Cell Line	embryonic stem cell
10	chr9:96710400-96712200	Bivalent Enhancer	Primary hematopoietic stem cells G-CSF-mobilized Female	--
11	chr9:96710400-96712200	Flanking Active TSS	Stomach Smooth Muscle	stomach
12	chr9:96710400-96713000	Bivalent Enhancer	Primary T helper cells fromperipheralblood	blood
13	chr9:96710600-96711200	Bivalent/Poised TSS	ES-WA7 Cell Line	embryonic stem cell
14	chr9:96710600-96711400	Bivalent Enhancer	Foreskin Melanocyte Primary Cells skin03	Skin
15	chr9:96710600-96711600	Bivalent Enhancer	Breast Myoepithelial Primary Cells	Breast
16	chr9:96710600-96711800	Bivalent/Poised TSS	iPS-15b Cell Line	embryonic stem cell
17	chr9:96710600-96712000	Flanking Bivalent TSS/Enh	ES-UCSF4 Cell Line	embryonic stem cell
18	chr9:96710600-96712200	Bivalent Enhancer	Fetal Muscle Trunk	muscle
19	chr9:96710600-96713800	Bivalent/Poised TSS	ES-I3 Cell Line	embryonic stem cell
20	chr9:96710800-96711200	Bivalent Enhancer	Adipose Nuclei	Adipose
21	chr9:96710800-96711200	Bivalent Enhancer	Fetal Brain Male	brain
22	chr9:96710800-96711600	Bivalent/Poised TSS	iPS DF 6.9 Cell Line	embryonic stem cell
23	chr9:96710800-96711600	Bivalent Enhancer	Foreskin Fibroblast Primary Cells skin01	Skin
24	chr9:96710800-96711600	Bivalent Enhancer	Duodenum Smooth Muscle	Duodenum
25	chr9:96710800-96711800	Enhancers	Pancreas	Pancrea
26	chr9:96710800-96712000	Flanking Bivalent TSS/Enh	H1 Cell Line	embryonic stem cell
27	chr9:96710800-96712000	Bivalent/Poised TSS	iPS-20b Cell Line	embryonic stem cell
28	chr9:96710800-96712000	Flanking Bivalent TSS/Enh	iPS DF 19.11 Cell Line	embryonic stem cell
29	chr9:96710800-96712000	Bivalent Enhancer	Lung	lung
30	chr9:96710800-96712000	Bivalent Enhancer	Right Ventricle	heart
31	chr9:96710800-96712200	Bivalent Enhancer	Fetal Muscle Leg	muscle
32	chr9:96710800-96712600	Bivalent Enhancer	Foreskin Keratinocyte Primary Cells skin02	Skin
33	chr9:96711000-96711200	Bivalent Enhancer	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
34	chr9:96711000-96711200	Bivalent/Poised TSS	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
35	chr9:96711000-96711200	Bivalent Enhancer	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
36	chr9:96711000-96711200	Bivalent Enhancer	Primary T helper naive cells from peripheral blood	blood
37	chr9:96711000-96711200	Bivalent Enhancer	Primary T helper memory cells from peripheral blood 1	blood
38	chr9:96711000-96711200	Bivalent Enhancer	Ganglion Eminence derived primary cultured neurospheres	brain
39	chr9:96711000-96711200	Bivalent Enhancer	Fetal Heart	heart
40	chr9:96711000-96711200	Bivalent Enhancer	Placenta Amnion	Placenta Amnion
41	chr9:96711000-96711200	Bivalent Enhancer	Psoas Muscle	Psoas
42	chr9:96711000-96711200	Bivalent Enhancer	Stomach Mucosa	stomach
43	chr9:96711000-96711400	Bivalent/Poised TSS	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
44	chr9:96711000-96711400	Flanking Bivalent TSS/Enh	HUES48 Cell Line	embryonic stem cell
45	chr9:96711000-96711400	Bivalent Enhancer	Esophagus	oesophagus
46	chr9:96711000-96711400	Flanking Bivalent TSS/Enh	Fetal Stomach	stomach
47	chr9:96711000-96711600	Bivalent Enhancer	Fetal Adrenal Gland	Adrenal Gland
48	chr9:96711000-96711800	Bivalent Enhancer	Cortex derived primary cultured neurospheres	brain
49	chr9:96711000-96711800	Bivalent Enhancer	Foreskin Keratinocyte Primary Cells skin03	Skin
50	chr9:96711000-96712000	Flanking Bivalent TSS/Enh	HUES6 Cell Line	embryonic stem cell

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