Variant report

Variant	rs3798264
Chromosome Location	chr6:45911254-45911255
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 14 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:12)

rs_ID	r²[population]
rs16874013	0.85[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.97[AFR][1000 genomes];0.80[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs16874019	1.00[CEU][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs16874029	1.00[CEU][hapmap];0.85[CHB][hapmap];1.00[JPT][hapmap];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs2179992	0.97[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs34943199	1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs35376655	0.91[AMR][1000 genomes];0.97[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs35570290	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs3777562	0.81[ASN][1000 genomes]
rs3798265	1.00[CEU][hapmap];0.85[CHB][hapmap];1.00[JPT][hapmap]
rs6916183	0.82[CHB][hapmap];1.00[AMR][1000 genomes];0.90[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs6921488	1.00[CEU][hapmap];0.85[CHB][hapmap];1.00[JPT][hapmap];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs71566554	1.00[EUR][1000 genomes];0.97[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	nsv532024	chr6:45475088-45982640	Strong transcription Enhancers Genic enhancers ZNF genes & repeats Flanking Bivalent TSS/Enh Weak transcription Flanking Active TSS Active TSS Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	21 gene(s)	inside rSNPs	diseases
2	nsv517891	chr6:45899823-45915088	Genic enhancers Weak transcription Enhancers Bivalent Enhancer Strong transcription Flanking Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:35 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:45898600-45914600	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
2	chr6:45898600-45916800	Weak transcription	Sigmoid Colon	Sigmoid Colon
3	chr6:45898800-45919200	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
4	chr6:45903000-45917200	Strong transcription	Fetal Intestine Large	intestine
5	chr6:45903400-45914400	Weak transcription	Primary T helper cells fromperipheralblood	blood
6	chr6:45905000-45911800	Strong transcription	Rectal Mucosa Donor 29	rectum
7	chr6:45907000-45916600	Weak transcription	Pancreas	Pancrea
8	chr6:45907400-45917600	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
9	chr6:45907800-45916400	Strong transcription	Rectal Mucosa Donor 31	rectum
10	chr6:45908000-45918600	Weak transcription	Primary T cells fromperipheralblood	blood
11	chr6:45908200-45918200	Weak transcription	Colonic Mucosa	Colon
12	chr6:45908800-45913800	Weak transcription	Ovary	ovary
13	chr6:45908800-45914600	Weak transcription	Duodenum Mucosa	Duodenum
14	chr6:45909000-45913200	Weak transcription	Fetal Muscle Leg	muscle
15	chr6:45909200-45912400	Weak transcription	Spleen	Spleen
16	chr6:45910600-45911400	Enhancers	ES-WA7 Cell Line	embryonic stem cell
17	chr6:45910600-45911400	Enhancers	ES-UCSF4 Cell Line	embryonic stem cell
18	chr6:45910600-45911600	Enhancers	HUES6 Cell Line	embryonic stem cell
19	chr6:45910600-45911600	Enhancers	iPS-18 Cell Line	embryonic stem cell
20	chr6:45910600-45911600	Genic enhancers	Left Ventricle	heart
21	chr6:45910600-45911600	Enhancers	Lung	lung
22	chr6:45910600-45911600	Enhancers	Right Atrium	heart
23	chr6:45910600-45911600	Enhancers	Right Ventricle	heart
24	chr6:45910600-45911600	Genic enhancers	Skeletal Muscle Female	skeletal muscle
25	chr6:45910600-45915400	Enhancers	Fetal Heart	heart
26	chr6:45910800-45913800	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
27	chr6:45911000-45911400	Enhancers	Adipose Nuclei	Adipose
28	chr6:45911000-45911600	Enhancers	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
29	chr6:45911000-45919200	Weak transcription	Small Intestine	intestine
30	chr6:45911000-45923600	Weak transcription	HUES64 Cell Line	embryonic stem cell
31	chr6:45911200-45911400	Flanking Active TSS	Skeletal Muscle Male	skeletal muscle
32	chr6:45911200-45912400	Weak transcription	Psoas Muscle	Psoas
33	chr6:45911200-45913400	Weak transcription	Fetal Intestine Small	intestine
34	chr6:45911200-45913800	Weak transcription	Placenta	Placenta
35	chr6:45911200-45918000	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links