Variant report

Variant	rs9478945
Chromosome Location	chr6:150164190-150164191
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr6:150159974..150162858-chr6:150163125..150167505,4	K562	blood:
2	chr6:150159974..150162736-chr6:150163125..150166318,3	K562	blood:
3	chr6:150157110..150158839-chr6:150161991..150164233,2	K562	blood:
4	chr6:150161516..150164235-chr6:150221796..150224745,2	K562	blood:
5	chr6:150160122..150165164-chr6:150183114..150187569,12	MCF-7	breast:
6	chr6:150154401..150157118-chr6:150163961..150165886,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000120256	Chromatin interaction
ENSG00000268592	Chromatin interaction

Extended variants
information (count: 20 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:15)

rs_ID	r²[population]
rs11969347	1.00[MEX][hapmap]
rs28379207	1.00[AMR][1000 genomes]
rs28622537	1.00[AMR][1000 genomes]
rs9478144	1.00[AMR][1000 genomes]
rs9478147	1.00[AMR][1000 genomes]
rs9478148	1.00[AMR][1000 genomes]
rs9478150	1.00[AMR][1000 genomes]
rs9478156	1.00[AMR][1000 genomes]
rs9478822	1.00[AMR][1000 genomes]
rs9478895	1.00[AMR][1000 genomes]
rs9478948	1.00[AMR][1000 genomes]
rs9479409	1.00[MKK][hapmap]
rs9480479	1.00[AMR][1000 genomes]
rs9505978	1.00[AMR][1000 genomes]
rs9505988	1.00[MKK][hapmap]

Variant overlapped rSNPs/rCNVs (count:5 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv886762	chr6:149866452-150174507	Weak transcription Genic enhancers Bivalent/Poised TSS Active TSS Strong transcription Enhancers Transcr. at gene 5' and 3' Flanking Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	41 gene(s)	inside rSNPs	diseases
2	esv1803291	chr6:150018508-150164190	Weak transcription Enhancers Active TSS Strong transcription Flanking Active TSS Genic enhancers Bivalent/Poised TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	29 gene(s)	inside rSNPs	diseases
3	nsv886763	chr6:150091219-150174507	Weak transcription Strong transcription Enhancers Genic enhancers Flanking Active TSS Active TSS ZNF genes & repeats Bivalent Enhancer Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	12 gene(s)	inside rSNPs	diseases
4	nsv886764	chr6:150114745-150393683	Weak transcription Bivalent Enhancer Flanking Active TSS Enhancers Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh Strong transcription Genic enhancers Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	40 gene(s)	inside rSNPs	diseases
5	nsv517022	chr6:150145001-150426272	Bivalent Enhancer Weak transcription Flanking Bivalent TSS/Enh Strong transcription Enhancers Bivalent/Poised TSS Active TSS Flanking Active TSS ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	39 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:84 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:150073800-150182400	Weak transcription	Fetal Brain Male	brain
2	chr6:150094400-150167200	Weak transcription	Rectal Smooth Muscle	rectum
3	chr6:150105800-150176400	Weak transcription	H9 Cell Line	embryonic stem cell
4	chr6:150112600-150167200	Weak transcription	Colon Smooth Muscle	Colon
5	chr6:150120000-150164600	Weak transcription	Fetal Kidney	kidney
6	chr6:150141400-150167200	Weak transcription	Right Atrium	heart
7	chr6:150146200-150167000	Weak transcription	Psoas Muscle	Psoas
8	chr6:150150600-150166400	Weak transcription	Placenta Amnion	Placenta Amnion
9	chr6:150152400-150165400	Weak transcription	HSMMtube	muscle
10	chr6:150152800-150172600	Weak transcription	Aorta	Aorta
11	chr6:150153000-150167000	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
12	chr6:150153000-150167800	Weak transcription	iPS-20b Cell Line	embryonic stem cell
13	chr6:150155800-150182600	Weak transcription	Dnd41	blood
14	chr6:150156400-150168400	Weak transcription	ES-I3 Cell Line	embryonic stem cell
15	chr6:150157600-150167000	Weak transcription	Duodenum Smooth Muscle	Duodenum
16	chr6:150158600-150165400	Weak transcription	Breast Myoepithelial Primary Cells	Breast
17	chr6:150158600-150167200	Weak transcription	Adipose Nuclei	Adipose
18	chr6:150158800-150176400	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
19	chr6:150159000-150165400	Weak transcription	Cortex derived primary cultured neurospheres	brain
20	chr6:150159200-150172800	Weak transcription	Spleen	Spleen
21	chr6:150161200-150164600	Strong transcription	H9 Derived Neuron Cultured Cells	ES cell derived
22	chr6:150161400-150168200	Weak transcription	Pancreatic Islets	Pancreatic Islet
23	chr6:150161600-150164200	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
24	chr6:150162000-150164200	Strong transcription	Foreskin Melanocyte Primary Cells skin03	Skin
25	chr6:150162000-150167400	Weak transcription	Rectal Mucosa Donor 31	rectum
26	chr6:150162200-150165400	Strong transcription	Fetal Stomach	stomach
27	chr6:150162200-150166800	Strong transcription	Brain Anterior Caudate	brain
28	chr6:150162200-150167000	Weak transcription	HSMM	muscle
29	chr6:150162200-150167400	Weak transcription	HUVEC	blood vessel
30	chr6:150162200-150168400	Weak transcription	Sigmoid Colon	Sigmoid Colon
31	chr6:150162200-150175800	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
32	chr6:150162400-150165400	Strong transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
33	chr6:150162400-150166000	Weak transcription	Brain Angular Gyrus	brain
34	chr6:150162400-150167000	Weak transcription	Fetal Heart	heart
35	chr6:150162400-150167200	Weak transcription	Stomach Mucosa	stomach
36	chr6:150162600-150164400	Strong transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
37	chr6:150162600-150164400	Strong transcription	Fetal Muscle Leg	muscle
38	chr6:150162600-150164800	Weak transcription	Muscle Satellite Cultured Cells	--
39	chr6:150162600-150164800	Weak transcription	NH-A	brain
40	chr6:150162600-150164800	Weak transcription	NHDF-Ad	bronchial
41	chr6:150162600-150165400	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
42	chr6:150162600-150167000	Weak transcription	Left Ventricle	heart
43	chr6:150162600-150168200	Weak transcription	Brain Substantia Nigra	brain
44	chr6:150162600-150168200	Weak transcription	Fetal Intestine Large	intestine
45	chr6:150162600-150172000	Weak transcription	Liver	Liver
46	chr6:150162600-150177200	Weak transcription	Fetal Lung	lung
47	chr6:150162800-150164400	Weak transcription	A549	lung
48	chr6:150163000-150164200	Strong transcription	Hela-S3	cervix
49	chr6:150163200-150164400	Strong transcription	Skeletal Muscle Female	skeletal muscle
50	chr6:150163200-150164600	Strong transcription	HepG2	liver

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links