Variant report

Variant	rs10992820
Chromosome Location	chr9:96402861-96402862
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr20:55837305..55839406-chr9:96402337..96403887,2	MCF-7	breast:
2	chr9:96393648..96395801-chr9:96402500..96404793,2	MCF-7	breast:

Extended variants
information (count: 40 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:36)

rs_ID	r²[population]
rs10115715	0.89[AMR][1000 genomes];0.99[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs10117599	0.82[EUR][1000 genomes]
rs10121780	0.94[AMR][1000 genomes];0.99[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs10992817	0.86[AMR][1000 genomes];0.99[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs10992818	0.89[AMR][1000 genomes];0.99[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs10992843	0.97[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs1132003	0.90[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs12335855	0.90[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs12341126	0.89[AMR][1000 genomes];0.99[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs12341865	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12348927	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12349481	0.96[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs12350966	0.89[EUR][1000 genomes]
rs12351976	0.89[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs12352026	0.89[AMR][1000 genomes];0.97[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs13440078	0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13440115	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2001316	0.99[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs2001995	0.86[AMR][1000 genomes];0.99[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs35137913	0.95[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs3750364	0.97[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs41276198	0.97[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs41276204	0.90[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs55682342	0.88[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs7023609	0.82[ASN][1000 genomes]
rs72747414	0.80[AMR][1000 genomes];0.98[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs72747430	0.97[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs72747446	0.96[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs72747448	0.97[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs72747451	0.97[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs72747468	0.89[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs72747474	0.87[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs72747481	0.81[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs72747487	0.89[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs7869847	0.87[AMR][1000 genomes];0.99[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs9695734	0.89[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[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	nsv893585	chr9:96363859-96403367	Weak transcription Enhancers Strong transcription ZNF genes & repeats Genic enhancers Active TSS Flanking Active TSS Flanking Bivalent TSS/Enh	Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
2	nsv893586	chr9:96363859-96493773	Strong transcription Weak transcription Enhancers ZNF genes & repeats Genic enhancers Flanking Active TSS Bivalent Enhancer Active TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	Chromatin interactive region	5 gene(s)	inside rSNPs	diseases
3	nsv1036609	chr9:96375217-96477641	Strong transcription Weak transcription ZNF genes & repeats Enhancers Genic enhancers Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Active TSS Active TSS	Chromatin interactive region	5 gene(s)	inside rSNPs	diseases
4	nsv893587	chr9:96383605-96451784	Weak transcription Genic enhancers Enhancers Strong transcription ZNF genes & repeats Bivalent Enhancer Active TSS Flanking Active TSS Transcr. at gene 5' and 3'	Chromatin interactive region	5 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:124 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:96380200-96411800	Weak transcription	iPS-15b Cell Line	embryonic stem cell
2	chr9:96384600-96412200	Weak transcription	Stomach Mucosa	stomach
3	chr9:96387000-96411800	Weak transcription	H9 Cell Line	embryonic stem cell
4	chr9:96390200-96405400	Weak transcription	HepG2	liver
5	chr9:96392000-96403400	Strong transcription	Primary Natural Killer cells fromperipheralblood	blood
6	chr9:96392200-96403800	Strong transcription	Fetal Muscle Trunk	muscle
7	chr9:96392200-96412000	Weak transcription	HMEC	breast
8	chr9:96392200-96423600	Strong transcription	Primary neutrophils fromperipheralblood	blood
9	chr9:96393600-96406600	Weak transcription	GM12878-XiMat	blood
10	chr9:96396400-96412000	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
11	chr9:96397200-96407800	Weak transcription	NHEK	skin
12	chr9:96398000-96403400	ZNF genes & repeats	Primary hematopoietic stem cells G-CSF-mobilized Male	--
13	chr9:96398200-96411200	Weak transcription	HUVEC	blood vessel
14	chr9:96398200-96413800	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
15	chr9:96398400-96403200	ZNF genes & repeats	Primary hematopoietic stem cells G-CSF-mobilized Female	--
16	chr9:96398600-96403000	ZNF genes & repeats	Fetal Brain Female	brain
17	chr9:96399000-96423400	Strong transcription	Fetal Intestine Large	intestine
18	chr9:96399200-96406200	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
19	chr9:96399400-96405400	Weak transcription	Esophagus	oesophagus
20	chr9:96399400-96423600	Strong transcription	Primary monocytes fromperipheralblood	blood
21	chr9:96399600-96403200	Strong transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
22	chr9:96400000-96403600	Weak transcription	Rectal Smooth Muscle	rectum
23	chr9:96400000-96405400	Weak transcription	Right Ventricle	heart
24	chr9:96400000-96405400	Weak transcription	NHLF	lung
25	chr9:96400000-96405600	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
26	chr9:96400000-96405800	Weak transcription	Colonic Mucosa	Colon
27	chr9:96400200-96403400	Weak transcription	Colon Smooth Muscle	Colon
28	chr9:96400200-96403400	Weak transcription	HSMMtube	muscle
29	chr9:96400200-96405200	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
30	chr9:96400200-96405400	Weak transcription	Gastric	stomach
31	chr9:96400200-96405400	Weak transcription	Spleen	Spleen
32	chr9:96400200-96405600	Weak transcription	Aorta	Aorta
33	chr9:96400200-96412000	Weak transcription	Hela-S3	cervix
34	chr9:96400400-96405000	Weak transcription	Fetal Thymus	thymus
35	chr9:96400400-96405200	Weak transcription	NH-A	brain
36	chr9:96400400-96405400	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
37	chr9:96400400-96405400	Weak transcription	Brain Angular Gyrus	brain
38	chr9:96400400-96405400	Weak transcription	Brain Inferior Temporal Lobe	brain
39	chr9:96400400-96405400	Weak transcription	Left Ventricle	heart
40	chr9:96400400-96405400	Weak transcription	Thymus	Thymus
41	chr9:96400400-96405600	Weak transcription	Brain Cingulate Gyrus	brain
42	chr9:96400400-96406800	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
43	chr9:96400400-96407200	Weak transcription	Brain Substantia Nigra	brain
44	chr9:96400400-96407200	Weak transcription	Rectal Mucosa Donor 29	rectum
45	chr9:96400400-96412000	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
46	chr9:96400400-96412000	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
47	chr9:96400400-96430600	Strong transcription	Monocytes-CD14+_RO01746	blood
48	chr9:96400600-96403600	Weak transcription	Primary B cells from peripheral blood	blood
49	chr9:96400600-96404800	Weak transcription	Muscle Satellite Cultured Cells	--
50	chr9:96400600-96405400	Weak transcription	Skeletal Muscle Female	skeletal muscle

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