Variant report

Variant	rs17496664
Chromosome Location	chr6:76199697-76199698
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr6:76198635..76201636-chr6:76201674..76204880,3	K562	blood:
2	chr6:76198635..76201117-chr6:76201674..76203519,2	K562	blood:

Variant related genes	Relation type
ENSG00000118407	Chromatin interaction

Extended variants
information (count: 59 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:50)

rs_ID	r²[population]
rs10485375	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.93[ASN][1000 genomes]
rs11753082	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.93[ASN][1000 genomes]
rs11754482	0.86[ASN][1000 genomes]
rs11754561	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.93[ASN][1000 genomes]
rs11755872	0.96[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.93[ASN][1000 genomes]
rs11756013	0.93[ASN][1000 genomes]
rs1414595	0.82[AMR][1000 genomes];0.85[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17414086	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.89[ASN][1000 genomes]
rs17414687	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap]
rs17414729	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap]
rs17414757	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap]
rs17497655	0.82[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17499394	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.86[ASN][1000 genomes]
rs17499531	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap]
rs17792195	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap]
rs1989367	0.93[ASN][1000 genomes]
rs2312929	1.00[CHB][hapmap];1.00[JPT][hapmap];0.96[ASN][1000 genomes]
rs2313589	0.93[ASN][1000 genomes]
rs55749651	0.89[ASN][1000 genomes]
rs55839204	0.86[ASN][1000 genomes]
rs55971756	0.89[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs55973299	0.93[ASN][1000 genomes]
rs56105244	0.82[ASN][1000 genomes]
rs56228311	0.96[ASN][1000 genomes]
rs56343691	0.93[ASN][1000 genomes]
rs62414230	0.90[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62414242	0.93[ASN][1000 genomes]
rs62414244	0.93[ASN][1000 genomes]
rs62415560	0.93[ASN][1000 genomes]
rs62415572	0.86[ASN][1000 genomes]
rs62415578	0.86[ASN][1000 genomes]
rs62415581	0.86[ASN][1000 genomes]
rs62415582	0.86[ASN][1000 genomes]
rs6453833	0.93[ASN][1000 genomes]
rs6453835	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.93[ASN][1000 genomes]
rs6901064	0.93[ASN][1000 genomes]
rs6904567	0.95[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap]
rs6912963	1.00[CEU][hapmap]
rs6913513	1.00[CEU][hapmap];0.93[ASN][1000 genomes]
rs6918285	0.93[ASN][1000 genomes]
rs6930338	0.93[ASN][1000 genomes]
rs715090	0.86[ASN][1000 genomes]
rs72884964	0.93[ASN][1000 genomes]
rs72886846	0.86[ASN][1000 genomes]
rs766244	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.86[ASN][1000 genomes]
rs7738852	0.93[ASN][1000 genomes]
rs7744412	0.93[ASN][1000 genomes]
rs7753896	0.93[ASN][1000 genomes]
rs7775832	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap]
rs956653	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.86[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:9 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1024079	chr6:75848556-76238519	Enhancers Flanking Active TSS Weak transcription Active TSS Bivalent Enhancer ZNF genes & repeats Genic enhancers Flanking Bivalent TSS/Enh Strong transcription Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	39 gene(s)	inside rSNPs	diseases
2	nsv1027915	chr6:75893542-76510113	Active TSS Enhancers Strong transcription Bivalent Enhancer Weak transcription Flanking Bivalent TSS/Enh Flanking Active TSS Genic enhancers ZNF genes & repeats Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	70 gene(s)	inside rSNPs	diseases
3	nsv538311	chr6:75893542-76510113	Weak transcription Enhancers Flanking Active TSS Flanking Bivalent TSS/Enh Active TSS Strong transcription Bivalent/Poised TSS Genic enhancers Bivalent Enhancer ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	70 gene(s)	inside rSNPs	diseases
4	nsv1022428	chr6:76023118-76575620	Weak transcription Strong transcription Enhancers Flanking Active TSS 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 miRNA	48 gene(s)	inside rSNPs	diseases
5	nsv538312	chr6:76023118-76575620	Weak transcription Enhancers Bivalent Enhancer Flanking Active TSS Strong transcription Transcr. at gene 5' and 3' Active TSS Genic enhancers Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA	48 gene(s)	inside rSNPs	diseases
6	nsv1032245	chr6:76045537-76545703	Enhancers Weak transcription Strong transcription Flanking Active TSS Active TSS ZNF genes & repeats Bivalent/Poised TSS Genic enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA	47 gene(s)	inside rSNPs	diseases
7	nsv538313	chr6:76045537-76545703	Strong transcription Weak transcription Enhancers Active TSS Bivalent/Poised TSS Flanking Active TSS ZNF genes & repeats Genic enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA	47 gene(s)	inside rSNPs	diseases
8	nsv1019328	chr6:76154751-76604197	Enhancers Weak transcription Strong transcription Active TSS Bivalent/Poised TSS Flanking Active TSS Genic enhancers ZNF genes & repeats Bivalent Enhancer Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	44 gene(s)	inside rSNPs	diseases
9	nsv538314	chr6:76154751-76604197	Enhancers Strong transcription Active TSS Weak transcription Genic enhancers Flanking Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	44 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs17496664	SENP6	Cis_1M	lymphoblastoid	RTeQTL

Chromatin state (count:33 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:76183000-76200800	Weak transcription	Fetal Muscle Trunk	muscle
2	chr6:76189600-76201200	Weak transcription	Lung	lung
3	chr6:76191600-76202200	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
4	chr6:76192000-76201400	Weak transcription	GM12878-XiMat	blood
5	chr6:76194000-76201000	Weak transcription	HSMMtube	muscle
6	chr6:76194600-76203200	Weak transcription	HUES6 Cell Line	embryonic stem cell
7	chr6:76194600-76204600	Weak transcription	iPS-15b Cell Line	embryonic stem cell
8	chr6:76196200-76202600	Weak transcription	Pancreas	Pancrea
9	chr6:76197200-76204200	Active TSS	Stomach Smooth Muscle	stomach
10	chr6:76197800-76204800	Active TSS	Duodenum Smooth Muscle	Duodenum
11	chr6:76198000-76200000	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
12	chr6:76198000-76200600	Weak transcription	Psoas Muscle	Psoas
13	chr6:76198000-76204000	Active TSS	Colon Smooth Muscle	Colon
14	chr6:76198000-76204200	Active TSS	Right Atrium	heart
15	chr6:76198200-76200400	Weak transcription	Fetal Muscle Leg	muscle
16	chr6:76198200-76203200	Weak transcription	HUES64 Cell Line	embryonic stem cell
17	chr6:76198600-76202800	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
18	chr6:76198600-76204000	Active TSS	Aorta	Aorta
19	chr6:76199000-76199800	Weak transcription	Fetal Heart	heart
20	chr6:76199000-76200600	Weak transcription	Adipose Nuclei	Adipose
21	chr6:76199000-76202200	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
22	chr6:76199000-76203000	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
23	chr6:76199000-76204000	Active TSS	Rectal Smooth Muscle	rectum
24	chr6:76199000-76204400	Active TSS	A549	lung
25	chr6:76199200-76200000	Weak transcription	Fetal Stomach	stomach
26	chr6:76199200-76200200	Weak transcription	Fetal Lung	lung
27	chr6:76199200-76200200	Weak transcription	Right Ventricle	heart
28	chr6:76199200-76200200	Enhancers	Skeletal Muscle Male	skeletal muscle
29	chr6:76199200-76200400	Weak transcription	Left Ventricle	heart
30	chr6:76199200-76200800	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
31	chr6:76199200-76202600	Weak transcription	NHLF	lung
32	chr6:76199200-76204200	Active TSS	Skeletal Muscle Female	skeletal muscle
33	chr6:76199400-76203400	Weak transcription	HUVEC	blood vessel

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