Variant report

Variant	rs7868949
Chromosome Location	chr9:109708207-109708208
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 10 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:7)

rs_ID	r²[population]
rs10512351	0.92[YRI][hapmap]
rs10978680	1.00[ASW][hapmap];1.00[LWK][hapmap];0.96[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs10978681	1.00[TSI][hapmap];1.00[EUR][1000 genomes]
rs10978682	1.00[YRI][hapmap];0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs11790439	0.85[ASW][hapmap];0.92[YRI][hapmap]
rs12351612	0.96[YRI][hapmap];0.82[AFR][1000 genomes]
rs7848294	1.00[TSI][hapmap]

Variant overlapped rSNPs/rCNVs (count:3 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv869202	chr9:108940763-109811530	Genic enhancers Weak transcription Enhancers Active TSS Strong transcription Flanking Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	23 gene(s)	inside rSNPs	diseases
2	nsv869351	chr9:109593212-110191170	Active TSS Genic enhancers Weak transcription Strong transcription Enhancers Flanking Active TSS Transcr. at gene 5' and 3' Bivalent Enhancer ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	34 gene(s)	inside rSNPs	diseases
3	nsv831680	chr9:109653596-109848827	Enhancers Weak transcription Strong transcription Flanking Active TSS Genic enhancers Active TSS ZNF genes & repeats Bivalent/Poised TSS Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	7 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:96 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:109685000-109713000	Strong transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
2	chr9:109685400-109708600	Strong transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
3	chr9:109686200-109722600	Strong transcription	Breast Myoepithelial Primary Cells	Breast
4	chr9:109688600-109738600	Weak transcription	Primary hematopoietic stem cells	blood
5	chr9:109690400-109728600	Strong transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
6	chr9:109692000-109734200	Weak transcription	Colonic Mucosa	Colon
7	chr9:109692200-109712200	Weak transcription	Gastric	stomach
8	chr9:109693200-109711600	Weak transcription	Spleen	Spleen
9	chr9:109695000-109715400	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
10	chr9:109696400-109709200	Weak transcription	A549	lung
11	chr9:109697600-109711600	Strong transcription	HUES6 Cell Line	embryonic stem cell
12	chr9:109698000-109710600	Strong transcription	H1 Cell Line	embryonic stem cell
13	chr9:109698000-109710600	Strong transcription	iPS-18 Cell Line	embryonic stem cell
14	chr9:109698000-109712600	Strong transcription	ES-UCSF4 Cell Line	embryonic stem cell
15	chr9:109698000-109721400	Strong transcription	HUES64 Cell Line	embryonic stem cell
16	chr9:109698000-109721600	Strong transcription	HUES48 Cell Line	embryonic stem cell
17	chr9:109698000-109722400	Strong transcription	iPS-20b Cell Line	embryonic stem cell
18	chr9:109698600-109714000	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
19	chr9:109699200-109709200	Weak transcription	Psoas Muscle	Psoas
20	chr9:109699200-109719000	Weak transcription	Pancreas	Pancrea
21	chr9:109699400-109709400	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
22	chr9:109700800-109724000	Strong transcription	Cortex derived primary cultured neurospheres	brain
23	chr9:109701400-109729600	Weak transcription	Brain Angular Gyrus	brain
24	chr9:109702000-109717400	Weak transcription	Dnd41	blood
25	chr9:109702200-109732400	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
26	chr9:109702400-109713800	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
27	chr9:109702400-109714000	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
28	chr9:109702400-109715000	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
29	chr9:109702400-109715400	Weak transcription	Brain Hippocampus Middle	brain
30	chr9:109702400-109720400	Weak transcription	iPS-15b Cell Line	embryonic stem cell
31	chr9:109702400-109730800	Weak transcription	Pancreatic Islets	Pancreatic Islet
32	chr9:109702400-109734200	Weak transcription	Duodenum Mucosa	Duodenum
33	chr9:109702400-109734200	Weak transcription	Lung	lung
34	chr9:109702600-109718600	Weak transcription	Brain Cingulate Gyrus	brain
35	chr9:109702600-109734200	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
36	chr9:109703400-109709400	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
37	chr9:109703400-109715000	Weak transcription	Placenta	Placenta
38	chr9:109703600-109712600	Weak transcription	Fetal Heart	heart
39	chr9:109703600-109715000	Weak transcription	Ovary	ovary
40	chr9:109703600-109731800	Weak transcription	Brain Inferior Temporal Lobe	brain
41	chr9:109703600-109734200	Weak transcription	Esophagus	oesophagus
42	chr9:109703600-109734200	Weak transcription	Rectal Mucosa Donor 31	rectum
43	chr9:109703800-109711800	Weak transcription	Fetal Muscle Leg	muscle
44	chr9:109703800-109729800	Weak transcription	Duodenum Smooth Muscle	Duodenum
45	chr9:109704600-109711800	Weak transcription	Fetal Muscle Trunk	muscle
46	chr9:109704600-109715400	Weak transcription	Right Ventricle	heart
47	chr9:109704600-109721000	Weak transcription	Right Atrium	heart
48	chr9:109704800-109708800	Weak transcription	Brain Germinal Matrix	brain
49	chr9:109704800-109709200	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
50	chr9:109704800-109709200	Weak transcription	Fetal Adrenal Gland	Adrenal Gland

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links