Variant report

Variant	rs3802459
Chromosome Location	chr9:97523953-97523954
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr9:97523331..97524905-chr9:97684127..97686565,2	MCF-7	breast:

Extended variants
information (count: 5 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:3)

rs_ID	r²[population]
rs10993381	1.00[CHB][hapmap]
rs12336437	1.00[CHB][hapmap]
rs12344052	1.00[CHB][hapmap]

Variant overlapped rSNPs/rCNVs (count:2 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv893596	chr9:97321172-97598966	Strong transcription Enhancers Weak transcription Genic enhancers Flanking Bivalent TSS/Enh ZNF genes & repeats Active TSS Bivalent/Poised TSS Flanking Active TSS Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA	17 gene(s)	inside rSNPs	diseases
2	nsv1041922	chr9:97444976-97536753	Flanking Active TSS Strong transcription Weak transcription Active TSS ZNF genes & repeats Enhancers Flanking Bivalent TSS/Enh Genic enhancers Bivalent Enhancer Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region	4 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:111 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:97489600-97524800	Weak transcription	Esophagus	oesophagus
2	chr9:97506200-97533400	Weak transcription	Placenta Amnion	Placenta Amnion
3	chr9:97506400-97526000	Weak transcription	Small Intestine	intestine
4	chr9:97509200-97536000	Weak transcription	Pancreas	Pancrea
5	chr9:97512600-97530400	Weak transcription	Primary T helper cells PMA-I stimulated	--
6	chr9:97512600-97540800	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
7	chr9:97512600-97544600	Weak transcription	Psoas Muscle	Psoas
8	chr9:97519800-97531200	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
9	chr9:97519800-97544600	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
10	chr9:97520400-97525800	Weak transcription	Primary T cells fromperipheralblood	blood
11	chr9:97520400-97531800	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
12	chr9:97520600-97529600	Weak transcription	NH-A	brain
13	chr9:97520600-97530600	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
14	chr9:97520800-97531200	Weak transcription	ES-I3 Cell Line	embryonic stem cell
15	chr9:97521200-97525000	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
16	chr9:97521400-97527400	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
17	chr9:97521600-97524000	Strong transcription	Fetal Thymus	thymus
18	chr9:97521600-97524200	Enhancers	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
19	chr9:97521800-97524000	Strong transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
20	chr9:97521800-97524200	Strong transcription	Foreskin Melanocyte Primary Cells skin03	Skin
21	chr9:97521800-97541200	Weak transcription	Right Ventricle	heart
22	chr9:97522000-97524000	Strong transcription	Muscle Satellite Cultured Cells	--
23	chr9:97522000-97524000	Strong transcription	Fetal Muscle Leg	muscle
24	chr9:97522000-97524200	Strong transcription	Fetal Intestine Large	intestine
25	chr9:97522200-97524000	Strong transcription	iPS-18 Cell Line	embryonic stem cell
26	chr9:97522400-97524000	Genic enhancers	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
27	chr9:97522400-97524000	Strong transcription	Skeletal Muscle Male	skeletal muscle
28	chr9:97522400-97540400	Weak transcription	Fetal Heart	heart
29	chr9:97522600-97524000	Strong transcription	H9 Derived Neuron Cultured Cells	ES cell derived
30	chr9:97522600-97524000	Strong transcription	Foreskin Melanocyte Primary Cells skin01	Skin
31	chr9:97522800-97532600	Weak transcription	K562	blood
32	chr9:97522800-97534600	Weak transcription	Fetal Brain Male	brain
33	chr9:97522800-97534600	Weak transcription	NHLF	lung
34	chr9:97523000-97524600	Weak transcription	H1 Cell Line	embryonic stem cell
35	chr9:97523000-97524800	Weak transcription	Sigmoid Colon	Sigmoid Colon
36	chr9:97523000-97529000	Weak transcription	NHDF-Ad	bronchial
37	chr9:97523000-97530200	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
38	chr9:97523000-97534600	Weak transcription	Ovary	ovary
39	chr9:97523200-97524000	Enhancers	HUES64 Cell Line	embryonic stem cell
40	chr9:97523200-97524200	Genic enhancers	Primary T helper cells fromperipheralblood	blood
41	chr9:97523200-97529800	Weak transcription	GM12878-XiMat	blood
42	chr9:97523200-97532600	Weak transcription	Brain Hippocampus Middle	brain
43	chr9:97523200-97535000	Weak transcription	Colon Smooth Muscle	Colon
44	chr9:97523400-97524000	Enhancers	Brain Anterior Caudate	brain
45	chr9:97523400-97525200	Weak transcription	Gastric	stomach
46	chr9:97523400-97525200	Weak transcription	Rectal Mucosa Donor 29	rectum
47	chr9:97523400-97525600	Weak transcription	Skeletal Muscle Female	skeletal muscle
48	chr9:97523400-97525800	Weak transcription	Rectal Smooth Muscle	rectum
49	chr9:97523400-97528600	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
50	chr9:97523400-97529000	Weak transcription	Brain Angular Gyrus	brain

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links