Variant report

Variant	rs16878472
Chromosome Location	chr5:80409407-80409408
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 17 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:14)

rs_ID	r²[population]
rs10058312	1.00[ASN][1000 genomes]
rs16878353	1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs16878383	1.00[CEU][hapmap];1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs16878417	1.00[AMR][1000 genomes]
rs16878437	1.00[CEU][hapmap]
rs16878457	1.00[CEU][hapmap];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs16878460	1.00[CEU][hapmap];1.00[GIH][hapmap];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs16878461	1.00[CEU][hapmap];1.00[GIH][hapmap];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2068624	1.00[CEU][hapmap];1.00[GIH][hapmap];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs56654359	1.00[ASN][1000 genomes]
rs57253191	1.00[EUR][1000 genomes]
rs6897350	1.00[CEU][hapmap];1.00[ASN][1000 genomes]
rs73766189	1.00[EUR][1000 genomes]
rs7720624	1.00[CEU][hapmap];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:3 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1024844	chr5:79862428-80860430	Weak transcription Strong transcription Enhancers Bivalent Enhancer Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS Flanking Active TSS Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	42 gene(s)	inside rSNPs	diseases
2	nsv830360	chr5:80283278-80446040	Enhancers Strong transcription Weak transcription Active TSS Flanking Active TSS Genic enhancers ZNF genes & repeats Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
3	nsv882232	chr5:80393949-80436584	Enhancers Weak transcription Flanking Active TSS Strong transcription Genic enhancers Active TSS ZNF genes & repeats Bivalent Enhancer	TF binding region CpG island Chromatin interactive region	1 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:40 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr5:80375000-80422600	Weak transcription	Left Ventricle	heart
2	chr5:80383200-80409800	Weak transcription	ES-I3 Cell Line	embryonic stem cell
3	chr5:80383200-80413600	Weak transcription	Ovary	ovary
4	chr5:80383400-80414800	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
5	chr5:80383400-80421600	Weak transcription	Brain Cingulate Gyrus	brain
6	chr5:80383600-80412600	Weak transcription	HUES48 Cell Line	embryonic stem cell
7	chr5:80394000-80417000	Weak transcription	NHLF	lung
8	chr5:80396800-80409600	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
9	chr5:80401000-80409600	Weak transcription	Brain Substantia Nigra	brain
10	chr5:80401000-80417600	Weak transcription	Brain Angular Gyrus	brain
11	chr5:80401600-80413400	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
12	chr5:80401600-80421400	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
13	chr5:80401800-80420200	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
14	chr5:80401800-80420600	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
15	chr5:80402000-80411200	Weak transcription	Primary T killer memory cells from peripheral blood	blood
16	chr5:80404400-80417600	Weak transcription	Brain Anterior Caudate	brain
17	chr5:80404800-80428200	Weak transcription	HUES6 Cell Line	embryonic stem cell
18	chr5:80406200-80417400	Weak transcription	Fetal Intestine Small	intestine
19	chr5:80406400-80412400	Strong transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
20	chr5:80406400-80415600	Weak transcription	Spleen	Spleen
21	chr5:80406600-80417800	Strong transcription	Primary T cells from cord blood	blood
22	chr5:80406800-80417400	Strong transcription	Primary T helper cells PMA-I stimulated	--
23	chr5:80407000-80428000	Strong transcription	Primary T helper cells fromperipheralblood	blood
24	chr5:80407200-80409600	Weak transcription	Brain Inferior Temporal Lobe	brain
25	chr5:80407200-80409800	Weak transcription	Brain Hippocampus Middle	brain
26	chr5:80408200-80410800	Strong transcription	Primary T helper naive cells fromperipheralblood	blood
27	chr5:80408200-80411000	Strong transcription	IMR90 fetal lung fibroblasts Cell Line	lung
28	chr5:80408200-80411800	Strong transcription	H9 Cell Line	embryonic stem cell
29	chr5:80408400-80409800	Strong transcription	Primary T helper 17 cells PMA-I stimulated	--
30	chr5:80408400-80410200	Strong transcription	Primary T killer naive cells fromperipheralblood	blood
31	chr5:80408400-80410800	Strong transcription	Primary mononuclear cells fromperipheralblood	Blood
32	chr5:80408400-80415600	Strong transcription	HepG2	liver
33	chr5:80408400-80418400	Strong transcription	Primary T cells fromperipheralblood	blood
34	chr5:80408600-80410600	Enhancers	Brain Germinal Matrix	brain
35	chr5:80408800-80409600	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
36	chr5:80408800-80426400	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
37	chr5:80409000-80410600	Enhancers	Adipose Nuclei	Adipose
38	chr5:80409200-80410600	Strong transcription	Primary T helper naive cells from peripheral blood	blood
39	chr5:80409200-80410600	Enhancers	Cortex derived primary cultured neurospheres	brain
40	chr5:80409400-80410600	Enhancers	Ganglion Eminence derived primary cultured neurospheres	brain

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