Variant report

Variant	rs10993344
Chromosome Location	chr9:97547935-97547936
allele	C/G
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:15)
LncRNA
region (count:0)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

No data

(count:15 , 50 per page) page: 1

No.	Distal block	Cell Line	Cell type
1	chr9:97537649..97550005-chr9:97763285..97775962,36	MCF-7	breast:
2	chr9:97545172..97548041-chr9:97865707..97867971,2	MCF-7	breast:
3	chr9:97545819..97548114-chr9:97554725..97556253,2	MCF-7	breast:
4	chr9:97546384..97548999-chr9:97554140..97556288,2	MCF-7	breast:
5	chr9:97543159..97549431-chr9:97764177..97768958,14	MCF-7	breast:
6	chr9:97400199..97403082-chr9:97547675..97549865,2	MCF-7	breast:
7	chr9:97543420..97548041-chr9:97751061..97760906,16	MCF-7	breast:
8	chr9:97544700..97548107-chr9:97891004..97896251,5	MCF-7	breast:
9	chr9:97547629..97550057-chr9:97559596..97562546,2	MCF-7	breast:
10	chr9:97544966..97548199-chr9:97548502..97553073,8	MCF-7	breast:
11	chr9:97539932..97552626-chr9:97673836..97693079,64	MCF-7	breast:
12	chr9:97540504..97553156-chr9:97674790..97689428,56	MCF-7	breast:
13	chr9:97547509..97550308-chr9:97851827..97853518,2	MCF-7	breast:
14	chr9:97545480..97547938-chr9:97567296..97570948,4	MCF-7	breast:
15	chr9:97545780..97548611-chr9:97694354..97696585,2	MCF-7	breast:

No data

Variant related genes	Relation type
ENSG00000148120	Chromatin interaction
ENSG00000165140	Chromatin interaction

Extended variants
information (count: 24 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:23)

rs_ID	r²[population]
rs10217143	0.81[CHB][hapmap];0.98[GIH][hapmap]
rs10739982	0.84[AMR][1000 genomes];0.85[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs10739983	0.88[AMR][1000 genomes];0.89[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs10761351	0.84[AMR][1000 genomes];0.83[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs10761361	0.81[CEU][hapmap]
rs10821390	0.96[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.87[AFR][1000 genomes];0.94[AMR][1000 genomes];0.98[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs10821392	0.93[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap];0.88[AMR][1000 genomes];0.89[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs10821393	0.88[AMR][1000 genomes];0.89[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs10821398	0.96[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap];0.90[AMR][1000 genomes];0.87[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs10821404	0.90[AMR][1000 genomes];0.86[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs10821413	0.81[CEU][hapmap]
rs11788697	0.84[AFR][1000 genomes];0.89[AMR][1000 genomes];0.88[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs1867102	0.89[CEU][hapmap];0.80[CHB][hapmap];1.00[GIH][hapmap];0.88[MEX][hapmap];0.83[TSI][hapmap]
rs2031698	0.87[AMR][1000 genomes];0.89[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs4743969	0.96[CEU][hapmap];0.95[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.88[MEX][hapmap];0.89[TSI][hapmap];0.88[AMR][1000 genomes];0.84[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs4744375	0.90[AMR][1000 genomes];0.89[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs4744386	0.96[CEU][hapmap];0.95[CHB][hapmap];0.98[CHD][hapmap];1.00[GIH][hapmap];0.91[JPT][hapmap];0.88[MEX][hapmap];0.89[TSI][hapmap];0.88[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs7022894	0.83[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs7027708	0.93[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap];0.88[AMR][1000 genomes];0.89[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs7847277	0.93[CEU][hapmap];0.85[CHB][hapmap];0.98[CHD][hapmap];1.00[GIH][hapmap];0.91[JPT][hapmap];0.88[MEX][hapmap];0.89[TSI][hapmap];0.88[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs7848139	0.93[CEU][hapmap];0.95[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.88[MEX][hapmap];0.89[TSI][hapmap];0.84[AMR][1000 genomes];0.87[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs7862219	0.81[CEU][hapmap];0.81[CHB][hapmap];0.98[GIH][hapmap]
rs7870160	0.84[MKK][hapmap];0.84[TSI][hapmap]

Variant overlapped rSNPs/rCNVs (count:1 , 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

No data

Chromatin state (count:93 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:97523400-97552600	Weak transcription	Dnd41	blood
2	chr9:97523400-97554000	Weak transcription	Primary T cells from cord blood	blood
3	chr9:97523400-97557800	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
4	chr9:97523400-97563800	Weak transcription	Fetal Kidney	kidney
5	chr9:97523600-97549400	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
6	chr9:97523600-97552600	Weak transcription	Thymus	Thymus
7	chr9:97523600-97554400	Weak transcription	Primary B cells from peripheral blood	blood
8	chr9:97524000-97553200	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
9	chr9:97524200-97554600	Weak transcription	Primary T helper cells fromperipheralblood	blood
10	chr9:97524200-97554600	Weak transcription	Fetal Intestine Large	intestine
11	chr9:97526600-97549000	Weak transcription	Primary T cells fromperipheralblood	blood
12	chr9:97530200-97551200	Weak transcription	Primary B cells from cord blood	blood
13	chr9:97530200-97563000	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
14	chr9:97531600-97563000	Weak transcription	HUES48 Cell Line	embryonic stem cell
15	chr9:97531600-97563000	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
16	chr9:97533800-97555000	Weak transcription	GM12878-XiMat	blood
17	chr9:97535800-97552600	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
18	chr9:97536200-97557800	Weak transcription	Primary hematopoietic stem cells	blood
19	chr9:97536400-97554600	Weak transcription	Primary hematopoietic stem cells short term culture	blood
20	chr9:97541600-97554800	Weak transcription	Right Ventricle	heart
21	chr9:97542400-97548600	Enhancers	Muscle Satellite Cultured Cells	--
22	chr9:97543000-97553200	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
23	chr9:97543000-97553800	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
24	chr9:97543200-97553000	Weak transcription	K562	blood
25	chr9:97545400-97552600	Weak transcription	Fetal Intestine Small	intestine
26	chr9:97545400-97556600	Weak transcription	Fetal Brain Male	brain
27	chr9:97545400-97567200	Weak transcription	Small Intestine	intestine
28	chr9:97545800-97548000	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
29	chr9:97545800-97548800	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
30	chr9:97545800-97549400	Weak transcription	Spleen	Spleen
31	chr9:97545800-97553200	Weak transcription	Placenta Amnion	Placenta Amnion
32	chr9:97545800-97553800	Weak transcription	Fetal Stomach	stomach
33	chr9:97545800-97554400	Weak transcription	Brain Germinal Matrix	brain
34	chr9:97545800-97554400	Weak transcription	Fetal Lung	lung
35	chr9:97545800-97554400	Weak transcription	Left Ventricle	heart
36	chr9:97545800-97554400	Weak transcription	Stomach Smooth Muscle	stomach
37	chr9:97545800-97554600	Weak transcription	Aorta	Aorta
38	chr9:97545800-97554600	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
39	chr9:97545800-97554600	Weak transcription	Placenta	Placenta
40	chr9:97545800-97554600	Weak transcription	Lung	lung
41	chr9:97545800-97554600	Weak transcription	NHLF	lung
42	chr9:97545800-97556000	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
43	chr9:97545800-97556400	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
44	chr9:97545800-97560600	Weak transcription	Sigmoid Colon	Sigmoid Colon
45	chr9:97545800-97562200	Weak transcription	Ovary	ovary
46	chr9:97545800-97562200	Weak transcription	Skeletal Muscle Male	skeletal muscle
47	chr9:97545800-97563000	Weak transcription	Adipose Nuclei	Adipose
48	chr9:97545800-97563000	Weak transcription	Gastric	stomach
49	chr9:97545800-97563000	Weak transcription	Rectal Mucosa Donor 29	rectum
50	chr9:97545800-97563000	Weak transcription	Rectal Smooth Muscle	rectum

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links