Variant report

Variant	rs1394135
Chromosome Location	chr4:21598315-21598316
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 90 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:82)

rs_ID	r²[population]
rs10006027	1.00[CEU][hapmap];1.00[MEX][hapmap];0.94[TSI][hapmap]
rs10009713	0.93[CEU][hapmap];1.00[MEX][hapmap];0.83[TSI][hapmap];0.85[AMR][1000 genomes]
rs10011740	0.92[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10025434	0.89[CEU][hapmap]
rs1021863	0.86[CEU][hapmap];1.00[MEX][hapmap];0.83[TSI][hapmap]
rs1158161	0.93[CEU][hapmap]
rs11730697	0.93[CEU][hapmap];1.00[MEX][hapmap];0.83[TSI][hapmap]
rs11737456	1.00[JPT][hapmap]
rs11946639	0.92[CEU][hapmap]
rs12507996	1.00[JPT][hapmap]
rs1394136	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[LWK][hapmap];1.00[MEX][hapmap];1.00[MKK][hapmap];1.00[TSI][hapmap];0.91[YRI][hapmap];1.00[AFR][1000 genomes];0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs16871492	1.00[JPT][hapmap];1.00[YRI][hapmap];0.89[ASN][1000 genomes]
rs16871499	1.00[JPT][hapmap]
rs16871502	1.00[JPT][hapmap];1.00[YRI][hapmap]
rs16871503	0.80[YRI][hapmap]
rs16871505	1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[ASN][1000 genomes]
rs16871508	1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[ASN][1000 genomes]
rs16871511	1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[ASN][1000 genomes]
rs16871514	1.00[YRI][hapmap];1.00[ASN][1000 genomes]
rs1827593	0.92[CEU][hapmap];1.00[MEX][hapmap];0.83[TSI][hapmap]
rs2202312	0.92[CEU][hapmap];1.00[YRI][hapmap];0.94[AFR][1000 genomes];0.91[AMR][1000 genomes];0.80[EUR][1000 genomes]
rs2340	0.86[CEU][hapmap]
rs358565	0.90[CEU][hapmap]
rs358830	0.93[CEU][hapmap];1.00[MEX][hapmap];0.83[TSI][hapmap]
rs358834	0.85[CEU][hapmap]
rs41397149	1.00[CHD][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[ASN][1000 genomes]
rs41463847	1.00[CHD][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap]
rs41500944	1.00[CHD][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[ASN][1000 genomes]
rs429783	0.93[CEU][hapmap];1.00[MEX][hapmap]
rs4385045	0.83[AMR][1000 genomes]
rs4697227	1.00[JPT][hapmap]
rs56155919	1.00[ASN][1000 genomes]
rs56186155	0.89[ASN][1000 genomes]
rs56408419	1.00[ASN][1000 genomes]
rs6448062	1.00[CEU][hapmap];1.00[JPT][hapmap];0.92[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6448064	0.87[CEU][hapmap];0.90[MEX][hapmap];0.86[TSI][hapmap]
rs6824702	0.90[ASN][1000 genomes]
rs6824711	1.00[ASN][1000 genomes]
rs6840297	1.00[JPT][hapmap]
rs6843682	1.00[JPT][hapmap]
rs6843752	1.00[JPT][hapmap];1.00[YRI][hapmap];0.89[ASN][1000 genomes]
rs6843837	1.00[CHD][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.89[ASN][1000 genomes]
rs6844068	0.89[ASN][1000 genomes]
rs6847761	0.86[CEU][hapmap];0.83[AMR][1000 genomes]
rs6848328	0.93[CEU][hapmap];0.83[AMR][1000 genomes]
rs6848885	1.00[CHD][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.89[ASN][1000 genomes]
rs6849321	1.00[CHD][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.89[ASN][1000 genomes]
rs73252255	0.89[ASN][1000 genomes]
rs73252256	0.89[ASN][1000 genomes]
rs73252257	0.89[ASN][1000 genomes]
rs73252260	0.89[ASN][1000 genomes]
rs73252261	0.89[ASN][1000 genomes]
rs73252264	0.89[ASN][1000 genomes]
rs73252265	0.89[ASN][1000 genomes]
rs73252266	1.00[ASN][1000 genomes]
rs73252267	1.00[ASN][1000 genomes]
rs73252268	1.00[ASN][1000 genomes]
rs73252269	1.00[ASN][1000 genomes]
rs73252271	1.00[ASN][1000 genomes]
rs73252272	1.00[ASN][1000 genomes]
rs73252288	1.00[ASN][1000 genomes]
rs73252289	1.00[ASN][1000 genomes]
rs73252290	1.00[ASN][1000 genomes]
rs73254304	1.00[ASN][1000 genomes]
rs73254305	1.00[ASN][1000 genomes]
rs73254306	1.00[ASN][1000 genomes]
rs73254307	1.00[ASN][1000 genomes]
rs73254310	1.00[ASN][1000 genomes]
rs73254311	1.00[ASN][1000 genomes]
rs73254313	1.00[ASN][1000 genomes]
rs73254386	1.00[ASN][1000 genomes]
rs7654710	1.00[CHD][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap]
rs7655030	0.80[YRI][hapmap]
rs7655708	1.00[CHD][hapmap];1.00[JPT][hapmap]
rs7657287	1.00[ASN][1000 genomes]
rs7657482	1.00[JPT][hapmap];0.89[ASN][1000 genomes]
rs7670800	0.93[CEU][hapmap];1.00[JPT][hapmap];0.92[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7677329	1.00[CHD][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap]
rs7679874	1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[ASN][1000 genomes]
rs7681243	1.00[ASN][1000 genomes]
rs7681823	1.00[ASN][1000 genomes]
rs9994077	1.00[CEU][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	nsv1013365	chr4:20834054-21609078	Bivalent/Poised TSS Flanking Active TSS Active TSS Weak transcription Enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh Strong transcription ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA	4 gene(s)	inside rSNPs	diseases
2	nsv829879	chr4:21418568-21611002	Weak transcription Strong transcription Enhancers Active TSS ZNF genes & repeats Flanking Active TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA	2 gene(s)	inside rSNPs	diseases
3	nsv998481	chr4:21421945-21608805	Enhancers Weak transcription Active TSS Flanking Active TSS Strong transcription ZNF genes & repeats Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA	2 gene(s)	inside rSNPs	diseases
4	nsv829880	chr4:21492426-21693816	Enhancers Weak transcription Flanking Active TSS Active TSS Bivalent Enhancer ZNF genes & repeats Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
5	nsv1008716	chr4:21580423-21633636	Weak transcription Active TSS Enhancers Flanking Active TSS	TF binding region lncRNA	1 gene(s)	inside rSNPs	diseases
6	nsv1003426	chr4:21580423-21640350	Active TSS Weak transcription Enhancers Flanking Active TSS	TF binding region lncRNA	1 gene(s)	inside rSNPs	diseases
7	nsv461289	chr4:21588298-21639516	Active TSS Weak transcription Enhancers Flanking Active TSS	lncRNA	n/a	inside rSNPs	diseases
8	nsv593809	chr4:21588298-21639516	Enhancers Flanking Active TSS Weak transcription Active TSS	lncRNA	n/a	inside rSNPs	diseases

No data

Chromatin state (count:19 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr4:21594200-21598400	Weak transcription	Brain Cingulate Gyrus	brain
2	chr4:21597200-21598800	Enhancers	iPS-15b Cell Line	embryonic stem cell
3	chr4:21597400-21598600	Enhancers	Brain Anterior Caudate	brain
4	chr4:21597400-21598800	Enhancers	ES-I3 Cell Line	embryonic stem cell
5	chr4:21597400-21599200	Enhancers	Brain Angular Gyrus	brain
6	chr4:21597600-21598800	Enhancers	H9 Cell Line	embryonic stem cell
7	chr4:21597600-21598800	Enhancers	HUES64 Cell Line	embryonic stem cell
8	chr4:21597600-21599400	Enhancers	Brain Substantia Nigra	brain
9	chr4:21597800-21598800	Enhancers	iPS-18 Cell Line	embryonic stem cell
10	chr4:21598000-21598400	Enhancers	ES-WA7 Cell Line	embryonic stem cell
11	chr4:21598000-21598600	Enhancers	Fetal Heart	heart
12	chr4:21598000-21598800	Enhancers	H9 Derived Neuron Cultured Cells	ES cell derived
13	chr4:21598000-21598800	Flanking Active TSS	HUES6 Cell Line	embryonic stem cell
14	chr4:21598200-21598400	Enhancers	HUES48 Cell Line	embryonic stem cell
15	chr4:21598200-21598600	Active TSS	iPS-20b Cell Line	embryonic stem cell
16	chr4:21598200-21598600	Enhancers	Ganglion Eminence derived primary cultured neurospheres	brain
17	chr4:21598200-21598600	Enhancers	Brain Inferior Temporal Lobe	brain
18	chr4:21598200-21598800	Enhancers	Cortex derived primary cultured neurospheres	brain
19	chr4:21598200-21598800	Flanking Active TSS	Brain Hippocampus Middle	brain

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