Variant report

Variant	rs3780621
Chromosome Location	chr9:101799293-101799294
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr9:101783186..101785549-chr9:101797018..101799423,2	K562	blood:
2	chr9:101796547..101799706-chr9:101804532..101807252,3	K562	blood:
3	chr9:101797627..101800388-chr9:101810354..101812234,3	K562	blood:

Extended variants
information (count: 15 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:13)

rs_ID	r²[population]
rs10988595	1.00[CEU][hapmap];0.88[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs10988660	1.00[CHB][hapmap];1.00[JPT][hapmap];0.81[AFR][1000 genomes];0.92[AMR][1000 genomes];0.94[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs11789689	0.91[CHB][hapmap];0.91[JPT][hapmap];0.87[MEX][hapmap];0.85[ASN][1000 genomes]
rs11792253	1.00[YRI][hapmap];0.95[AFR][1000 genomes];0.88[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs12684344	0.94[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs2075666	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.97[GIH][hapmap];1.00[JPT][hapmap];1.00[LWK][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];0.97[AFR][1000 genomes];0.96[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2297602	0.83[ASW][hapmap];0.85[GIH][hapmap];0.88[MKK][hapmap]
rs3824511	0.91[CHB][hapmap];0.91[JPT][hapmap];0.87[MEX][hapmap];0.85[ASN][1000 genomes]
rs4742755	1.00[CEU][hapmap];0.81[MEX][hapmap]
rs58180460	0.82[AFR][1000 genomes]
rs60891605	0.94[AMR][1000 genomes];0.95[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs949802	1.00[CHB][hapmap];0.95[JPT][hapmap];0.81[AFR][1000 genomes];0.92[AMR][1000 genomes];0.92[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs976240	1.00[ASW][hapmap];0.97[GIH][hapmap];1.00[LWK][hapmap];1.00[MEX][hapmap];1.00[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];0.95[AFR][1000 genomes];0.90[AMR][1000 genomes];0.88[EUR][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	nsv466442	chr9:101788522-101816399	ZNF genes & repeats Enhancers Weak transcription Genic enhancers Strong transcription Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Active TSS Active TSS	TF binding region CpG island Chromatin interactive region	4 gene(s)	inside rSNPs	diseases
2	nsv614954	chr9:101788522-101816399	Strong transcription Genic enhancers Enhancers Weak transcription ZNF genes & repeats Flanking Active TSS Active TSS Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region	4 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:44 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:101761600-101814400	Weak transcription	Gastric	stomach
2	chr9:101782000-101819800	Weak transcription	Colonic Mucosa	Colon
3	chr9:101787200-101806400	Weak transcription	Ovary	ovary
4	chr9:101788200-101803200	Weak transcription	Spleen	Spleen
5	chr9:101789000-101812000	Weak transcription	Esophagus	oesophagus
6	chr9:101789200-101805400	Weak transcription	Right Ventricle	heart
7	chr9:101791200-101800600	Weak transcription	Brain Germinal Matrix	brain
8	chr9:101793400-101802000	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
9	chr9:101793600-101800400	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
10	chr9:101793600-101802000	Weak transcription	Placenta Amnion	Placenta Amnion
11	chr9:101793800-101799800	Weak transcription	NHDF-Ad	bronchial
12	chr9:101793800-101837600	Weak transcription	Psoas Muscle	Psoas
13	chr9:101794000-101801800	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
14	chr9:101795400-101799400	Strong transcription	Fetal Muscle Leg	muscle
15	chr9:101795400-101803200	Strong transcription	Fetal Muscle Trunk	muscle
16	chr9:101795600-101800000	Strong transcription	IMR90 fetal lung fibroblasts Cell Line	lung
17	chr9:101795800-101803200	Strong transcription	Adipose Nuclei	Adipose
18	chr9:101796000-101800200	Strong transcription	Fetal Stomach	stomach
19	chr9:101796000-101802000	Strong transcription	Fetal Adrenal Gland	Adrenal Gland
20	chr9:101796200-101806400	Strong transcription	Stomach Smooth Muscle	stomach
21	chr9:101796600-101801800	Weak transcription	Primary hematopoietic stem cells short term culture	blood
22	chr9:101797200-101800600	Genic enhancers	Placenta	Placenta
23	chr9:101797400-101799400	Strong transcription	Skeletal Muscle Male	skeletal muscle
24	chr9:101797400-101799800	Strong transcription	Colon Smooth Muscle	Colon
25	chr9:101797400-101801200	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
26	chr9:101797600-101799600	Strong transcription	Duodenum Smooth Muscle	Duodenum
27	chr9:101797800-101800200	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
28	chr9:101797800-101802000	Weak transcription	Left Ventricle	heart
29	chr9:101798200-101801600	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
30	chr9:101798200-101801800	Weak transcription	Primary T helper cells PMA-I stimulated	--
31	chr9:101798200-101803200	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
32	chr9:101798200-101811400	Weak transcription	Primary T helper cells fromperipheralblood	blood
33	chr9:101798400-101803200	Weak transcription	Primary T cells from cord blood	blood
34	chr9:101798400-101819800	Weak transcription	Skeletal Muscle Female	skeletal muscle
35	chr9:101798800-101800000	Enhancers	HSMMtube	muscle
36	chr9:101798800-101800200	Strong transcription	Rectal Smooth Muscle	rectum
37	chr9:101798800-101803200	Weak transcription	Thymus	Thymus
38	chr9:101799000-101802800	Enhancers	Fetal Brain Male	brain
39	chr9:101799000-101804600	Enhancers	HSMM	muscle
40	chr9:101799200-101800200	Enhancers	Fetal Brain Female	brain
41	chr9:101799200-101801800	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
42	chr9:101799200-101802000	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
43	chr9:101799200-101803200	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
44	chr9:101799200-101814600	Weak transcription	Pancreas	Pancrea

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links