Variant report

Variant	rs10780585
Chromosome Location	chr9:72341644-72341645
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr9:72339646..72342312-chr9:72347391..72349704,2	K562	blood:

Variant related genes	Relation type
ENSG00000188647	Chromatin interaction

Extended variants
information (count: 35 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:33)

rs_ID	r²[population]
rs10118222	0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10119846	0.82[CEU][hapmap];0.82[CHB][hapmap];1.00[JPT][hapmap];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10217776	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10735560	0.98[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs10746706	0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10746707	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10780610	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10867922	0.98[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs10868056	1.00[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs11139996	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1330238	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1330240	1.00[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs1330332	0.89[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs1411410	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs1411413	1.00[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs1536992	0.89[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs1536994	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs1547690	1.00[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs1576482	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs1576483	1.00[CEU][hapmap];0.86[CHB][hapmap];1.00[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs1980934	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.96[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs2026794	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2150045	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.89[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2252130	0.96[ASN][1000 genomes]
rs2274745	1.00[ASN][1000 genomes]
rs2309531	1.00[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs4535802	1.00[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs4535803	1.00[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs7023462	0.98[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs7037769	1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs7039383	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7851707	0.89[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs7867543	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]

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	nsv471309	chr9:72273898-72410323	Weak transcription Genic enhancers Strong transcription Enhancers Flanking Active TSS Bivalent Enhancer Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	10 gene(s)	inside rSNPs	diseases
2	nsv1048622	chr9:72303617-72371795	Weak transcription Strong transcription Genic enhancers Enhancers Active TSS ZNF genes & repeats Flanking Active TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region miRNA target site	3 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	chr9:72323600-72344400	Weak transcription	NHEK	skin
2	chr9:72323600-72360800	Strong transcription	HUES64 Cell Line	embryonic stem cell
3	chr9:72323800-72357600	Strong transcription	Monocytes-CD14+_RO01746	blood
4	chr9:72324200-72361000	Strong transcription	iPS-20b Cell Line	embryonic stem cell
5	chr9:72324600-72359800	Strong transcription	HUES48 Cell Line	embryonic stem cell
6	chr9:72324800-72345200	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
7	chr9:72325000-72358800	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
8	chr9:72325400-72346200	Weak transcription	Primary T killer memory cells from peripheral blood	blood
9	chr9:72326000-72345000	Weak transcription	Rectal Smooth Muscle	rectum
10	chr9:72326600-72344600	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
11	chr9:72326600-72346400	Weak transcription	Small Intestine	intestine
12	chr9:72327800-72366800	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
13	chr9:72328000-72345000	Weak transcription	Brain Cingulate Gyrus	brain
14	chr9:72329000-72344400	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
15	chr9:72329600-72345000	Weak transcription	Colon Smooth Muscle	Colon
16	chr9:72330000-72349600	Strong transcription	Primary Natural Killer cells fromperipheralblood	blood
17	chr9:72330600-72346200	Weak transcription	Colonic Mucosa	Colon
18	chr9:72330600-72357400	Strong transcription	HUES6 Cell Line	embryonic stem cell
19	chr9:72331200-72346600	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
20	chr9:72332200-72344600	Weak transcription	Hela-S3	cervix
21	chr9:72333400-72374000	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
22	chr9:72333600-72342000	Weak transcription	Primary T helper naive cells from peripheral blood	blood
23	chr9:72333600-72344600	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
24	chr9:72333600-72344600	Weak transcription	Brain Substantia Nigra	brain
25	chr9:72333600-72345000	Weak transcription	Aorta	Aorta
26	chr9:72333600-72345000	Weak transcription	Esophagus	oesophagus
27	chr9:72333600-72345000	Weak transcription	Fetal Stomach	stomach
28	chr9:72333600-72345000	Weak transcription	Right Ventricle	heart
29	chr9:72333600-72345200	Weak transcription	Lung	lung
30	chr9:72333600-72345400	Weak transcription	NHLF	lung
31	chr9:72333800-72344400	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
32	chr9:72333800-72345000	Weak transcription	Ovary	ovary
33	chr9:72335200-72350400	Strong transcription	ES-UCSF4 Cell Line	embryonic stem cell
34	chr9:72335400-72344600	Weak transcription	K562	blood
35	chr9:72335800-72344600	Weak transcription	Psoas Muscle	Psoas
36	chr9:72335800-72346600	Weak transcription	Fetal Intestine Small	intestine
37	chr9:72336000-72352600	Weak transcription	Pancreatic Islets	Pancreatic Islet
38	chr9:72336200-72344200	Weak transcription	Fetal Brain Female	brain
39	chr9:72336600-72345000	Weak transcription	HSMMtube	muscle
40	chr9:72336600-72359400	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
41	chr9:72336800-72342200	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
42	chr9:72337000-72344200	Weak transcription	Fetal Heart	heart
43	chr9:72337200-72350200	Strong transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
44	chr9:72337400-72366400	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
45	chr9:72337600-72344600	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
46	chr9:72337600-72344600	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
47	chr9:72337600-72346600	Weak transcription	Placenta Amnion	Placenta Amnion
48	chr9:72338200-72344400	Weak transcription	Thymus	Thymus
49	chr9:72338200-72344400	Weak transcription	NHDF-Ad	bronchial
50	chr9:72338200-72344600	Strong transcription	H9 Derived Neuron Cultured Cells	ES cell derived

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links