Variant report

Variant	rs9482842
Chromosome Location	chr6:128158535-128158536
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 28 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:26)

rs_ID	r²[population]
rs270004	0.95[CEU][hapmap];0.92[CHB][hapmap];1.00[JPT][hapmap];0.84[AMR][1000 genomes];0.82[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs270006	0.96[CEU][hapmap];0.93[CHB][hapmap];1.00[JPT][hapmap];0.84[AMR][1000 genomes];0.82[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs270024	0.83[CEU][hapmap]
rs270025	0.96[CEU][hapmap];0.93[CHB][hapmap];1.00[JPT][hapmap];0.86[YRI][hapmap];0.86[AMR][1000 genomes];0.82[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs270027	0.95[CEU][hapmap];0.93[CHB][hapmap];1.00[JPT][hapmap];0.82[AMR][1000 genomes];0.94[ASN][1000 genomes]
rs270028	0.96[CEU][hapmap];0.93[CHB][hapmap];0.91[CHD][hapmap];1.00[JPT][hapmap];0.80[AMR][1000 genomes];0.81[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs270029	0.96[CEU][hapmap];0.93[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.94[AFR][1000 genomes];0.87[AMR][1000 genomes];0.82[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs270030	0.96[CEU][hapmap];0.93[CHB][hapmap];0.91[CHD][hapmap];1.00[JPT][hapmap];0.87[MEX][hapmap];0.93[MKK][hapmap];0.85[TSI][hapmap];0.90[YRI][hapmap];0.86[AMR][1000 genomes];0.84[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs270031	0.81[AMR][1000 genomes];0.81[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs270032	0.96[CEU][hapmap];0.93[CHB][hapmap];1.00[JPT][hapmap];0.93[YRI][hapmap];0.91[AFR][1000 genomes];0.85[AMR][1000 genomes];0.82[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs270033	0.96[CEU][hapmap];0.93[CHB][hapmap];0.91[CHD][hapmap];1.00[JPT][hapmap];0.87[MEX][hapmap];0.92[MKK][hapmap];0.84[AMR][1000 genomes];0.94[ASN][1000 genomes]
rs270035	0.96[CEU][hapmap];0.93[CHB][hapmap];1.00[JPT][hapmap];0.81[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs270036	0.95[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.84[AMR][1000 genomes];0.83[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs270042	0.94[ASN][1000 genomes]
rs270043	0.96[CEU][hapmap];0.93[CHB][hapmap];0.87[CHD][hapmap];1.00[JPT][hapmap];0.87[MEX][hapmap];0.93[MKK][hapmap];0.85[TSI][hapmap];0.80[AMR][1000 genomes];0.82[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs270046	0.95[CEU][hapmap];0.93[CHB][hapmap];1.00[JPT][hapmap];0.94[ASN][1000 genomes]
rs270047	0.94[ASN][1000 genomes]
rs4142030	0.85[GIH][hapmap];0.82[TSI][hapmap]
rs4897234	0.81[EUR][1000 genomes]
rs62425526	0.81[EUR][1000 genomes]
rs7738306	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.95[AMR][1000 genomes];0.97[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs7749181	0.81[EUR][1000 genomes]
rs7767438	0.85[GIH][hapmap];0.88[MKK][hapmap];0.87[TSI][hapmap];0.81[EUR][1000 genomes]
rs875336	0.82[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs9398854	0.81[EUR][1000 genomes]
rs9491876	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.98[GIH][hapmap];1.00[JPT][hapmap];0.95[MEX][hapmap];1.00[TSI][hapmap];0.96[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[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	nsv830799	chr6:128033100-128194511	Genic enhancers Enhancers Weak transcription Strong transcription Flanking Active TSS Transcr. at gene 5' and 3' Active TSS ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS	Chromatin interactive region	n/a	inside rSNPs	diseases
2	esv1849854	chr6:128143774-128287313	Weak transcription Active TSS Enhancers Strong transcription ZNF genes & repeats Flanking Active TSS Genic enhancers Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region	2 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs9482842	THEMIS	cis	parietal	SCAN

Chromatin state (count:16 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:128134800-128180200	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
2	chr6:128139600-128178800	Weak transcription	Dnd41	blood
3	chr6:128151200-128160000	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
4	chr6:128153200-128160600	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
5	chr6:128155800-128160600	Weak transcription	Thymus	Thymus
6	chr6:128157200-128158600	Enhancers	Primary T helper naive cells fromperipheralblood	blood
7	chr6:128158000-128160600	Weak transcription	Primary T helper cells fromperipheralblood	blood
8	chr6:128158200-128159200	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
9	chr6:128158200-128160600	Weak transcription	Primary T cells fromperipheralblood	blood
10	chr6:128158200-128160600	Weak transcription	Primary T helper cells PMA-I stimulated	--
11	chr6:128158200-128160600	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
12	chr6:128158200-128161800	Weak transcription	Primary T helper naive cells from peripheral blood	blood
13	chr6:128158400-128160600	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
14	chr6:128158400-128160600	Weak transcription	Fetal Thymus	thymus
15	chr6:128158400-128161800	Weak transcription	Primary T cells from cord blood	blood
16	chr6:128158400-128166600	Weak transcription	Primary T killer memory cells from peripheral blood	blood

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links