Variant report

Variant	rs9390117
Chromosome Location	chr6:143907590-143907591
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	chr6:143903236..143905601-chr6:143907118..143909608,2	K562	blood:
2	chr6:143903484..143905278-chr6:143906828..143909532,2	MCF-7	breast:

Extended variants
information (count: 28 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:27)

rs_ID	r²[population]
rs10782290	0.95[AFR][1000 genomes];0.95[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs35914889	0.83[AMR][1000 genomes]
rs6909701	0.81[AMR][1000 genomes];0.89[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs7764231	0.88[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs9285501	0.95[AFR][1000 genomes];0.99[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9321918	0.80[AMR][1000 genomes];0.83[ASN][1000 genomes]
rs9321920	0.81[AMR][1000 genomes]
rs9321921	0.82[AFR][1000 genomes];0.85[AMR][1000 genomes];0.89[ASN][1000 genomes]
rs9321927	0.97[AFR][1000 genomes];0.96[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs9376767	0.98[AFR][1000 genomes];0.96[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs9376768	0.94[AFR][1000 genomes];0.96[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs9386039	0.92[AFR][1000 genomes];0.83[AMR][1000 genomes];0.89[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs9390116	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9390118	0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs9390119	0.84[AFR][1000 genomes];0.98[AMR][1000 genomes];0.81[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs9390120	0.98[AFR][1000 genomes];0.96[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs9399449	0.99[AFR][1000 genomes];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs9403510	0.81[AMR][1000 genomes]
rs9403514	0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9403515	0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9403516	0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9403517	0.98[AFR][1000 genomes];0.96[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs9484776	0.93[AFR][1000 genomes];0.95[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs9496685	0.96[AFR][1000 genomes];0.96[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs9496686	0.98[AFR][1000 genomes];0.96[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs9496687	0.96[AFR][1000 genomes];0.96[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs9496691	0.98[AFR][1000 genomes];0.96[AMR][1000 genomes];0.97[EUR][1000 genomes]

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	nsv7972	chr6:143905304-143911787	Enhancers ZNF genes & repeats Weak transcription Genic enhancers	Chromatin interactive region lncRNA	n/a	inside rSNPs	n/a

No data

Chromatin state (count:22 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:143894400-143907600	Weak transcription	Stomach Mucosa	stomach
2	chr6:143895600-143918200	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
3	chr6:143897600-143907600	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
4	chr6:143899400-143918000	Weak transcription	Spleen	Spleen
5	chr6:143899800-143919200	Weak transcription	Monocytes-CD14+_RO01746	blood
6	chr6:143900800-143918200	Weak transcription	Duodenum Smooth Muscle	Duodenum
7	chr6:143901200-143918000	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
8	chr6:143903200-143912600	Weak transcription	Primary T cells fromperipheralblood	blood
9	chr6:143903400-143911800	Weak transcription	Fetal Intestine Large	intestine
10	chr6:143903400-143918200	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
11	chr6:143903600-143907600	Weak transcription	Rectal Mucosa Donor 31	rectum
12	chr6:143903600-143912200	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
13	chr6:143903600-143918600	Weak transcription	Primary T helper cells PMA-I stimulated	--
14	chr6:143904400-143908000	Enhancers	Fetal Muscle Leg	muscle
15	chr6:143904600-143908000	Enhancers	Fetal Stomach	stomach
16	chr6:143905000-143907600	Weak transcription	Sigmoid Colon	Sigmoid Colon
17	chr6:143905600-143911400	Weak transcription	Placenta	Placenta
18	chr6:143905600-143915600	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
19	chr6:143906600-143907600	Weak transcription	Fetal Lung	lung
20	chr6:143906600-143915400	Weak transcription	Gastric	stomach
21	chr6:143907000-143907800	Weak transcription	Fetal Intestine Small	intestine
22	chr6:143907000-143911400	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links