Variant report

Variant	rs17159370
Chromosome Location	chr5:100115571-100115572
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 46 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:40)

rs_ID	r²[population]
rs10515265	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10515266	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10515267	1.00[ASN][1000 genomes]
rs1423381	1.00[CEU][hapmap];1.00[GIH][hapmap];0.82[MEX][hapmap];1.00[EUR][1000 genomes]
rs17159344	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17159464	0.92[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17159467	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17159519	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17159534	1.00[ASN][1000 genomes]
rs17159602	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17159616	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17159626	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17160705	1.00[CEU][hapmap];0.82[MEX][hapmap];1.00[EUR][1000 genomes]
rs17160732	1.00[CEU][hapmap];1.00[JPT][hapmap];0.83[ASN][1000 genomes]
rs17160771	1.00[GIH][hapmap];1.00[JPT][hapmap]
rs17160844	1.00[CEU][hapmap];1.00[JPT][hapmap];0.83[ASN][1000 genomes]
rs2544911	1.00[CEU][hapmap];1.00[GIH][hapmap];0.83[MEX][hapmap];1.00[EUR][1000 genomes]
rs2544912	1.00[CEU][hapmap]
rs2544914	1.00[CEU][hapmap];1.00[EUR][1000 genomes]
rs2544915	1.00[CEU][hapmap];1.00[EUR][1000 genomes]
rs2544917	1.00[EUR][1000 genomes]
rs2544919	1.00[CEU][hapmap];1.00[GIH][hapmap];0.83[MEX][hapmap];0.87[EUR][1000 genomes]
rs2548272	1.00[CEU][hapmap];1.00[EUR][1000 genomes]
rs2548277	1.00[CEU][hapmap];0.83[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs2561524	1.00[CEU][hapmap];1.00[EUR][1000 genomes]
rs2561525	1.00[CEU][hapmap];0.87[EUR][1000 genomes]
rs2561526	1.00[CEU][hapmap];1.00[EUR][1000 genomes]
rs2725118	1.00[EUR][1000 genomes]
rs2725123	1.00[CEU][hapmap];1.00[EUR][1000 genomes]
rs3776165	1.00[CEU][hapmap];1.00[GIH][hapmap];0.83[MEX][hapmap];1.00[EUR][1000 genomes]
rs3776166	1.00[CEU][hapmap];1.00[GIH][hapmap];0.83[MEX][hapmap];0.87[EUR][1000 genomes]
rs3776173	1.00[CEU][hapmap];1.00[JPT][hapmap];0.81[AMR][1000 genomes];0.83[ASN][1000 genomes]
rs3857364	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6595534	1.00[CEU][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.88[MEX][hapmap]
rs6878151	1.00[ASN][1000 genomes]
rs6897681	0.92[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73775624	0.92[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs768777	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7725476	1.00[ASN][1000 genomes]
rs980901	1.00[EUR][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	nsv948969	chr5:99534096-100133827	Weak transcription Enhancers Flanking Active TSS Strong transcription ZNF genes & repeats Active TSS Genic enhancers Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	26 gene(s)	inside rSNPs	diseases
2	nsv1021183	chr5:99625857-100221426	Flanking Active TSS Weak transcription Strong transcription Active TSS Enhancers Bivalent Enhancer ZNF genes & repeats Flanking Bivalent TSS/Enh Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA	27 gene(s)	inside rSNPs	diseases
3	nsv1017420	chr5:99745775-100133140	Flanking Active TSS Enhancers Active TSS Weak transcription Strong transcription Genic enhancers ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	19 gene(s)	inside rSNPs	diseases
4	nsv537825	chr5:99745775-100133140	Enhancers Flanking Active TSS Active TSS Weak transcription Bivalent Enhancer Strong transcription ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3' Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	19 gene(s)	inside rSNPs	diseases
5	nsv1023765	chr5:99915011-100733755	Weak transcription Enhancers Bivalent/Poised TSS Strong transcription Active TSS ZNF genes & repeats Flanking Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA	8 gene(s)	inside rSNPs	diseases
6	esv2762532	chr5:100041758-100136552	Enhancers Flanking Active TSS Weak transcription ZNF genes & repeats Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:30 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr5:100113400-100116000	Enhancers	Primary B cells from peripheral blood	blood
2	chr5:100113600-100115600	Weak transcription	iPS-18 Cell Line	embryonic stem cell
3	chr5:100113800-100115600	Weak transcription	Primary T helper cells fromperipheralblood	blood
4	chr5:100113800-100115600	Enhancers	Dnd41	blood
5	chr5:100114000-100115600	Weak transcription	Primary T helper naive cells from peripheral blood	blood
6	chr5:100114000-100115600	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
7	chr5:100114000-100115800	Weak transcription	ES-I3 Cell Line	embryonic stem cell
8	chr5:100114000-100116000	Enhancers	Primary monocytes fromperipheralblood	blood
9	chr5:100114000-100136400	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
10	chr5:100114400-100115600	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
11	chr5:100114400-100115800	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
12	chr5:100115200-100115600	Enhancers	Primary T cells from cord blood	blood
13	chr5:100115200-100115600	Enhancers	Primary hematopoietic stem cells	blood
14	chr5:100115200-100115600	Enhancers	Primary T helper memory cells from peripheral blood 1	blood
15	chr5:100115200-100115600	Enhancers	Primary T helper cells PMA-I stimulated	--
16	chr5:100115200-100116000	Enhancers	Primary T helper naive cells fromperipheralblood	blood
17	chr5:100115200-100116600	Flanking Active TSS	Primary neutrophils fromperipheralblood	blood
18	chr5:100115200-100117000	Flanking Active TSS	Monocytes-CD14+_RO01746	blood
19	chr5:100115400-100115600	Enhancers	Duodenum Mucosa	Duodenum
20	chr5:100115400-100115800	Enhancers	Primary T helper 17 cells PMA-I stimulated	--
21	chr5:100115400-100115800	Enhancers	Primary T regulatory cells fromperipheralblood	blood
22	chr5:100115400-100116000	Enhancers	Primary T helper memory cells from peripheral blood 2	blood
23	chr5:100115400-100116000	Enhancers	Primary T killer memory cells from peripheral blood	blood
24	chr5:100115400-100116000	Enhancers	Colonic Mucosa	Colon
25	chr5:100115400-100116000	Flanking Active TSS	GM12878-XiMat	blood
26	chr5:100115400-100116200	Enhancers	Primary T cells fromperipheralblood	blood
27	chr5:100115400-100116200	Enhancers	Fetal Thymus	thymus
28	chr5:100115400-100116400	Enhancers	Primary hematopoietic stem cells short term culture	blood
29	chr5:100115400-100116400	Enhancers	Adipose Nuclei	Adipose
30	chr5:100115400-100116600	Flanking Active TSS	Primary B cells from cord blood	blood

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