Variant report

Variant	rs56908632
Chromosome Location	chr9:136742278-136742279
allele	C/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:1)
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	chr9:136733619..136743972-chr9:136852076..136861381,50	MCF-7	breast:
2	chr9:136741297..136743504-chr9:136863564..136865596,2	MCF-7	breast:
3	chr9:136737561..136740251-chr9:136741491..136743722,2	K562	blood:
4	chr9:136737400..136743457-chr9:136819359..136829756,12	MCF-7	breast:
5	chr9:136736139..136748779-chr9:136853521..136861128,82	MCF-7	breast:
6	chr9:136701985..136719064-chr9:136732605..136742545,35	MCF-7	breast:
7	chr9:136707781..136709506-chr9:136739982..136742386,2	MCF-7	breast:
8	chr9:136734507..136736594-chr9:136741200..136744507,3	K562	blood:

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

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-SARDH-3	chr9:136741686-136742402	NONHSAT135345

No data

Variant related genes	Relation type
ENSG00000160293	Chromatin interaction

Extended variants
information (count: 36 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:28)

rs_ID	r²[population]
rs10114092	1.00[AMR][1000 genomes]
rs10116423	1.00[AMR][1000 genomes]
rs10117330	1.00[AMR][1000 genomes]
rs10821538	1.00[AMR][1000 genomes]
rs10993858	1.00[AMR][1000 genomes]
rs10993859	1.00[AMR][1000 genomes]
rs10993867	1.00[AMR][1000 genomes]
rs10993868	1.00[AMR][1000 genomes]
rs2428119	1.00[AMR][1000 genomes]
rs2428120	1.00[AMR][1000 genomes]
rs2428121	1.00[AMR][1000 genomes]
rs2486349	1.00[AMR][1000 genomes]
rs2486352	1.00[AMR][1000 genomes]
rs2488562	1.00[AMR][1000 genomes]
rs2502733	1.00[AMR][1000 genomes]
rs2502753	1.00[AMR][1000 genomes]
rs2502764	1.00[AMR][1000 genomes]
rs2510236	1.00[AMR][1000 genomes]
rs2993799	1.00[AMR][1000 genomes]
rs3003585	1.00[AMR][1000 genomes]
rs55950463	1.00[AMR][1000 genomes]
rs55977312	1.00[AMR][1000 genomes]
rs59975587	1.00[AMR][1000 genomes]
rs73662309	1.00[AMR][1000 genomes]
rs73662310	1.00[AMR][1000 genomes]
rs73662321	1.00[AMR][1000 genomes]
rs73663862	1.00[AMR][1000 genomes]
rs9409867	1.00[AMR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:8 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv894114	chr9:136538798-136779153	Flanking Active TSS Enhancers Genic enhancers Strong transcription Weak transcription Bivalent Enhancer Flanking Bivalent TSS/Enh Active TSS ZNF genes & repeats Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	16 gene(s)	inside rSNPs	diseases
2	nsv831745	chr9:136593702-136780273	Bivalent Enhancer Enhancers Flanking Active TSS Transcr. at gene 5' and 3' Genic enhancers Weak transcription ZNF genes & repeats Strong transcription Flanking Bivalent TSS/Enh Active TSS Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	14 gene(s)	inside rSNPs	diseases
3	nsv831746	chr9:136607829-136750740	Enhancers Weak transcription Strong transcription Flanking Active TSS Genic enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh ZNF genes & repeats Active TSS Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	13 gene(s)	inside rSNPs	diseases
4	nsv894122	chr9:136632662-136760639	Enhancers Weak transcription Strong transcription Bivalent Enhancer Genic enhancers Flanking Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Active TSS Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	12 gene(s)	inside rSNPs	diseases
5	nsv1035272	chr9:136665308-136772256	Weak transcription Enhancers Strong transcription Active TSS Bivalent Enhancer Genic enhancers Flanking Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent/Poised TSS	Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases
6	nsv894123	chr9:136682408-136852501	Weak transcription Enhancers Bivalent Enhancer Genic enhancers Strong transcription ZNF genes & repeats Flanking Active TSS Active TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	12 gene(s)	inside rSNPs	diseases
7	nsv894124	chr9:136716399-136870787	Weak transcription Enhancers Active TSS Strong transcription Genic enhancers Flanking Active TSS Bivalent/Poised TSS Bivalent Enhancer Transcr. at gene 5' and 3' ZNF genes & repeats Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	23 gene(s)	inside rSNPs	diseases
8	nsv894125	chr9:136723520-136931957	Enhancers Strong transcription Weak transcription Flanking Active TSS Active TSS Genic enhancers ZNF genes & repeats Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	31 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:67 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:136729600-136780000	Weak transcription	Stomach Smooth Muscle	stomach
2	chr9:136729800-136762600	Weak transcription	Right Ventricle	heart
3	chr9:136735600-136744200	Weak transcription	Fetal Brain Male	brain
4	chr9:136735600-136747400	Weak transcription	iPS-15b Cell Line	embryonic stem cell
5	chr9:136735800-136742400	Weak transcription	GM12878-XiMat	blood
6	chr9:136736000-136760000	Weak transcription	Primary B cells from cord blood	blood
7	chr9:136736400-136745200	Weak transcription	Primary B cells from peripheral blood	blood
8	chr9:136736800-136756200	Genic enhancers	H1 Derived Mesenchymal Stem Cells	ES cell derived
9	chr9:136737000-136743000	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
10	chr9:136737200-136742800	Enhancers	Fetal Muscle Leg	muscle
11	chr9:136737200-136749000	Enhancers	Placenta Amnion	Placenta Amnion
12	chr9:136738200-136743000	Enhancers	Breast Myoepithelial Primary Cells	Breast
13	chr9:136738400-136742400	Enhancers	ES-UCSF4 Cell Line	embryonic stem cell
14	chr9:136738400-136742600	Enhancers	Esophagus	oesophagus
15	chr9:136738400-136743800	Enhancers	iPS DF 19.11 Cell Line	embryonic stem cell
16	chr9:136738400-136744800	Genic enhancers	Fetal Intestine Small	intestine
17	chr9:136738800-136744400	Weak transcription	Fetal Brain Female	brain
18	chr9:136738800-136746000	Weak transcription	Brain Inferior Temporal Lobe	brain
19	chr9:136738800-136746400	Weak transcription	Right Atrium	heart
20	chr9:136739200-136742400	Enhancers	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
21	chr9:136739400-136744400	Enhancers	Pancreas	Pancrea
22	chr9:136739400-136746400	Weak transcription	Fetal Lung	lung
23	chr9:136739800-136742600	Enhancers	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
24	chr9:136739800-136747600	Weak transcription	Brain Cingulate Gyrus	brain
25	chr9:136739800-136748000	Enhancers	Liver	Liver
26	chr9:136739800-136748200	Weak transcription	Fetal Thymus	thymus
27	chr9:136740000-136743200	Enhancers	HMEC	breast
28	chr9:136740000-136747200	Weak transcription	NHLF	lung
29	chr9:136740000-136754800	Weak transcription	Osteobl	bone
30	chr9:136740200-136747000	Weak transcription	Lung	lung
31	chr9:136740200-136757400	Weak transcription	Duodenum Mucosa	Duodenum
32	chr9:136740400-136746400	Weak transcription	ES-I3 Cell Line	embryonic stem cell
33	chr9:136740400-136746400	Weak transcription	Spleen	Spleen
34	chr9:136740600-136742600	Bivalent Enhancer	Fetal Adrenal Gland	Adrenal Gland
35	chr9:136740600-136743200	Enhancers	Fetal Muscle Trunk	muscle
36	chr9:136740600-136744000	Enhancers	Cortex derived primary cultured neurospheres	brain
37	chr9:136740600-136745200	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
38	chr9:136741000-136745200	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
39	chr9:136741200-136742600	Enhancers	Brain Germinal Matrix	brain
40	chr9:136741400-136742400	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
41	chr9:136741400-136745400	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
42	chr9:136741400-136746000	Weak transcription	HSMMtube	muscle
43	chr9:136741400-136746600	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
44	chr9:136741400-136747200	Weak transcription	iPS-20b Cell Line	embryonic stem cell
45	chr9:136741600-136742400	Weak transcription	Fetal Intestine Large	intestine
46	chr9:136741600-136745600	Strong transcription	Foreskin Fibroblast Primary Cells skin02	Skin
47	chr9:136741800-136742400	Enhancers	Brain Hippocampus Middle	brain
48	chr9:136741800-136743000	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
49	chr9:136741800-136744200	Weak transcription	HepG2	liver
50	chr9:136741800-136744600	Weak transcription	HUES6 Cell Line	embryonic stem cell

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links