Variant report

Variant	rs2015661
Chromosome Location	chr5:80253968-80253969
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:8)

rs_ID	r²[population]
rs10491488	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.97[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs10491490	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.96[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs12522495	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.95[AMR][1000 genomes];0.97[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs12653956	0.92[AMR][1000 genomes];0.94[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs66484258	0.96[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs6893705	0.91[AMR][1000 genomes];0.94[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs888822	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.99[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs888823	0.99[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:6 , 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	nsv598747	chr5:79996632-80322712	Weak transcription Enhancers Strong transcription ZNF genes & repeats Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh Genic enhancers Flanking Active TSS Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	14 gene(s)	inside rSNPs	diseases
3	nsv1016100	chr5:80023679-80254194	Strong transcription Enhancers Weak transcription ZNF genes & repeats Genic enhancers Active TSS Flanking Active TSS Bivalent/Poised TSS Bivalent Enhancer Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	12 gene(s)	inside rSNPs	diseases
4	nsv1021784	chr5:80023679-80313586	ZNF genes & repeats Bivalent Enhancer Strong transcription Enhancers Weak transcription Flanking Active TSS Flanking Bivalent TSS/Enh Active TSS Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	14 gene(s)	inside rSNPs	diseases
5	nsv537787	chr5:80023679-80313586	Weak transcription Enhancers Strong transcription Flanking Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent Enhancer Active TSS Bivalent/Poised TSS Transcr. at gene 5' and 3' Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	14 gene(s)	inside rSNPs	diseases
6	nsv830358	chr5:80197105-80358920	Flanking Bivalent TSS/Enh Active TSS Enhancers Weak transcription Flanking Active TSS Bivalent Enhancer Bivalent/Poised TSS ZNF genes & repeats Genic enhancers Strong transcription Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:38 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr5:80249000-80255000	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
2	chr5:80251600-80255800	Enhancers	ES-UCSF4 Cell Line	embryonic stem cell
3	chr5:80252000-80254000	Enhancers	iPS DF 6.9 Cell Line	embryonic stem cell
4	chr5:80252200-80254000	Enhancers	Primary T cells from cord blood	blood
5	chr5:80252400-80254000	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
6	chr5:80252400-80254000	Enhancers	H1 Cell Line	embryonic stem cell
7	chr5:80252400-80255600	Enhancers	Cortex derived primary cultured neurospheres	brain
8	chr5:80252400-80255600	Weak transcription	Ovary	ovary
9	chr5:80252600-80254000	Enhancers	Ganglion Eminence derived primary cultured neurospheres	brain
10	chr5:80252600-80255400	Enhancers	Primary T helper cells fromperipheralblood	blood
11	chr5:80252800-80255600	Enhancers	Primary T helper naive cells from peripheral blood	blood
12	chr5:80253000-80255000	Enhancers	ES-I3 Cell Line	embryonic stem cell
13	chr5:80253000-80255200	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
14	chr5:80253000-80255200	Weak transcription	Brain Substantia Nigra	brain
15	chr5:80253000-80255200	Enhancers	Thymus	Thymus
16	chr5:80253000-80255400	Bivalent Enhancer	iPS-18 Cell Line	embryonic stem cell
17	chr5:80253200-80254000	Enhancers	Primary T killer naive cells fromperipheralblood	blood
18	chr5:80253200-80255400	Enhancers	Primary T killer memory cells from peripheral blood	blood
19	chr5:80253200-80255600	Enhancers	Primary T helper naive cells fromperipheralblood	blood
20	chr5:80253200-80256000	Bivalent Enhancer	Fetal Thymus	thymus
21	chr5:80253400-80254000	Enhancers	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
22	chr5:80253400-80254000	Enhancers	iPS-20b Cell Line	embryonic stem cell
23	chr5:80253400-80254600	Enhancers	H9 Cell Line	embryonic stem cell
24	chr5:80253400-80254600	Enhancers	HUES64 Cell Line	embryonic stem cell
25	chr5:80253400-80254600	Enhancers	Primary Natural Killer cells fromperipheralblood	blood
26	chr5:80253400-80254800	Enhancers	HUES48 Cell Line	embryonic stem cell
27	chr5:80253400-80255400	Enhancers	Primary T cells fromperipheralblood	blood
28	chr5:80253400-80255800	Enhancers	Dnd41	blood
29	chr5:80253600-80254400	Weak transcription	HepG2	liver
30	chr5:80253600-80255600	Enhancers	Primary T helper memory cells from peripheral blood 2	blood
31	chr5:80253600-80255600	Enhancers	Primary T helper 17 cells PMA-I stimulated	--
32	chr5:80253800-80254000	Bivalent Enhancer	Primary hematopoietic stem cells short term culture	blood
33	chr5:80253800-80254400	Bivalent Enhancer	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
34	chr5:80253800-80255200	Bivalent Enhancer	HUES6 Cell Line	embryonic stem cell
35	chr5:80253800-80255200	Bivalent Enhancer	iPS-15b Cell Line	embryonic stem cell
36	chr5:80253800-80255200	Enhancers	Primary T helper memory cells from peripheral blood 1	blood
37	chr5:80253800-80255200	Enhancers	Primary T helper cells PMA-I stimulated	--
38	chr5:80253800-80255400	Enhancers	Primary T cells effector/memory enriched fromperipheralblood	blood

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