Variant report

Variant	rs10899794
Chromosome Location	chr10:43867364-43867365
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Transcrition factor	Chromosome Location	Cell Line	Cell type	Cell Stage	Matched TF binding sites
1	POLR2A	chr10:43866870-43867430	MCF-7	breast:	n/a	n/a
2	JUN	chr10:43866846-43867413	K562	blood:	n/a	n/a

Variant related genes	Relation type
FXYD4	TF binding region

Extended variants
information (count: 75 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:67)

rs_ID	r²[population]
rs10409	0.89[JPT][hapmap]
rs10793431	0.84[JPT][hapmap]
rs10899792	0.85[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs10899797	0.94[CHB][hapmap];1.00[JPT][hapmap];0.89[ASN][1000 genomes]
rs10899803	0.89[JPT][hapmap]
rs10899807	0.90[JPT][hapmap]
rs1112959	0.84[JPT][hapmap]
rs11238525	0.82[ASN][1000 genomes]
rs11238526	0.92[ASN][1000 genomes]
rs11238532	0.89[JPT][hapmap]
rs11238536	0.90[JPT][hapmap]
rs11238553	0.89[JPT][hapmap]
rs1126487	0.85[JPT][hapmap]
rs1126709	0.87[ASN][1000 genomes]
rs12220230	0.90[JPT][hapmap]
rs12221341	1.00[CEU][hapmap];0.87[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs12240317	0.84[JPT][hapmap]
rs12245391	0.87[CHB][hapmap];0.83[JPT][hapmap]
rs12250140	0.90[JPT][hapmap]
rs12257917	0.88[ASN][1000 genomes]
rs12260474	0.84[JPT][hapmap]
rs13376803	0.89[JPT][hapmap]
rs1416226	0.85[JPT][hapmap]
rs2066044	0.85[JPT][hapmap]
rs2243492	1.00[CEU][hapmap];0.85[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs2245413	1.00[CEU][hapmap];0.82[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs2245710	0.85[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs2247979	0.88[CHB][hapmap];1.00[JPT][hapmap];0.82[ASN][1000 genomes]
rs2247981	0.88[CHB][hapmap];1.00[JPT][hapmap];0.82[ASN][1000 genomes]
rs2248335	0.85[JPT][hapmap]
rs2250444	0.88[CHB][hapmap];1.00[JPT][hapmap]
rs2252783	0.90[JPT][hapmap]
rs2252785	0.85[JPT][hapmap]
rs2252800	0.88[ASN][1000 genomes]
rs2255967	0.88[ASN][1000 genomes]
rs2259045	0.85[JPT][hapmap]
rs2260200	0.85[JPT][hapmap]
rs2261636	0.82[CHB][hapmap];1.00[JPT][hapmap]
rs2265886	0.85[JPT][hapmap]
rs2265887	0.80[ASN][1000 genomes]
rs2265952	0.85[ASN][1000 genomes]
rs2460535	0.92[EUR][1000 genomes]
rs2460558	0.93[AMR][1000 genomes];0.96[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs2492405	0.85[JPT][hapmap]
rs2492407	0.82[ASN][1000 genomes]
rs2493648	0.85[JPT][hapmap]
rs2493659	0.94[EUR][1000 genomes]
rs2819021	0.85[JPT][hapmap]
rs2819032	0.88[ASN][1000 genomes]
rs2819034	0.86[ASN][1000 genomes]
rs2946992	0.91[AMR][1000 genomes];0.95[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs3000700	0.84[ASN][1000 genomes]
rs3750890	0.85[JPT][hapmap]
rs4597022	0.85[JPT][hapmap]
rs4948726	0.88[CHB][hapmap];1.00[JPT][hapmap]
rs56059584	0.88[ASN][1000 genomes]
rs60739384	0.88[AFR][1000 genomes];0.95[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs61859002	0.81[ASN][1000 genomes]
rs7070029	0.82[ASN][1000 genomes]
rs7070769	0.85[JPT][hapmap]
rs7088430	0.82[ASN][1000 genomes]
rs7905676	0.83[CHB][hapmap];1.00[JPT][hapmap];0.87[ASN][1000 genomes]
rs7912358	0.83[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs7914140	0.85[JPT][hapmap]
rs7920539	0.85[JPT][hapmap]
rs7921001	0.82[ASN][1000 genomes]
rs9422371	0.85[JPT][hapmap]

Variant overlapped rSNPs/rCNVs (count:8 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv430159	chr10:43291894-43946294	Flanking Active TSS Enhancers Active TSS Strong transcription Weak transcription ZNF genes & repeats Bivalent Enhancer Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	92 gene(s)	inside rSNPs	diseases
2	nsv916378	chr10:43622151-43868356	Weak transcription Enhancers Active TSS Flanking Active TSS Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Strong transcription ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	16 gene(s)	inside rSNPs	diseases
3	nsv1043661	chr10:43626619-43890162	Bivalent Enhancer Active TSS Enhancers Weak transcription Bivalent/Poised TSS Flanking Active TSS Genic enhancers Strong transcription Flanking Bivalent TSS/Enh ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	17 gene(s)	inside rSNPs	diseases
4	nsv540574	chr10:43626619-43890162	Enhancers Bivalent Enhancer Flanking Active TSS Active TSS Weak transcription Genic enhancers Strong transcription Bivalent/Poised TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	17 gene(s)	inside rSNPs	diseases
5	nsv1035873	chr10:43721143-43873664	Flanking Active TSS Enhancers Bivalent Enhancer Bivalent/Poised TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Weak transcription Genic enhancers Active TSS Transcr. at gene 5' and 3' Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	14 gene(s)	inside rSNPs	diseases
6	nsv895087	chr10:43783339-43982390	Enhancers Weak transcription Active TSS Flanking Active TSS Strong transcription Transcr. at gene 5' and 3' Genic enhancers Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	73 gene(s)	inside rSNPs	diseases
7	nsv831842	chr10:43846541-43987501	Strong transcription Flanking Active TSS Active TSS Weak transcription Enhancers Bivalent Enhancer Genic enhancers Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	69 gene(s)	inside rSNPs	diseases
8	nsv521283	chr10:43866528-43871998	Weak transcription Enhancers Flanking Active TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:13 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr10:43858600-43891000	Weak transcription	Right Atrium	heart
2	chr10:43861200-43872400	Weak transcription	Fetal Intestine Small	intestine
3	chr10:43866400-43870400	Enhancers	Brain Inferior Temporal Lobe	brain
4	chr10:43867000-43867400	Enhancers	iPS DF 19.11 Cell Line	embryonic stem cell
5	chr10:43867000-43867400	Enhancers	Placenta	Placenta
6	chr10:43867000-43867400	Enhancers	Stomach Mucosa	stomach
7	chr10:43867000-43868000	Enhancers	Brain Hippocampus Middle	brain
8	chr10:43867000-43868800	Enhancers	Brain Substantia Nigra	brain
9	chr10:43867200-43867400	Enhancers	Gastric	stomach
10	chr10:43867200-43867400	Flanking Active TSS	K562	blood
11	chr10:43867200-43868200	Weak transcription	Fetal Muscle Trunk	muscle
12	chr10:43867200-43870200	Enhancers	Brain Cingulate Gyrus	brain
13	chr10:43867200-43876200	Weak transcription	Hela-S3	cervix

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