Variant report

Variant	rs17178077
Chromosome Location	chr6:29618919-29618920
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

TF binding
region (count:0)
CpG islands
(count:0)
Chromatin interactive
region (count:9)
LncRNA
region (count:0)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

No data

(count:9 , 50 per page) page: 1

No.	Distal block	Cell Line	Cell type
1	chr6:29593421..29596019-chr6:29617479..29619432,2	K562	blood:
2	chr6:29608179..29610477-chr6:29617988..29619609,2	K562	blood:
3	chr6:29598640..29604637-chr6:29614654..29620933,9	K562	blood:
4	chr6:29608179..29609839-chr6:29617502..29619488,2	K562	blood:
5	chr6:29616642..29621245-chr6:29621568..29627231,6	K562	blood:
6	chr6:29593197..29596046-chr6:29616000..29618979,4	K562	blood:
7	chr6:29615912..29617460-chr6:29617899..29619662,2	MCF-7	breast:
8	chr6:29598560..29601918-chr6:29614006..29619393,6	K562	blood:
9	chr6:29618832..29619613-chr6:29653205..29653756,2	MCF-7	breast:

No data

Variant related genes	Relation type
ENSG00000204681	Chromatin interaction
ENSG00000204655	Chromatin interaction
ENSG00000235238	Chromatin interaction

Extended variants
information (count: 25 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:22)

rs_ID	r²[population]
rs10214740	0.81[AFR][1000 genomes]
rs16895213	1.00[ASN][1000 genomes]
rs16895214	1.00[ASN][1000 genomes]
rs3025622	1.00[ASN][1000 genomes]
rs6912437	1.00[ASN][1000 genomes]
rs6920509	1.00[ASN][1000 genomes]
rs7767894	1.00[ASN][1000 genomes]
rs9295809	0.84[AFR][1000 genomes];0.87[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9468565	1.00[AFR][1000 genomes]
rs9468566	1.00[AFR][1000 genomes]
rs9468569	1.00[AFR][1000 genomes];0.87[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9468578	1.00[AFR][1000 genomes];0.87[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9468581	0.94[AFR][1000 genomes]
rs9468590	0.89[AFR][1000 genomes];0.87[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9500949	0.94[AFR][1000 genomes];0.87[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9500950	0.94[AFR][1000 genomes];0.87[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9500951	0.94[AFR][1000 genomes];0.87[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9500952	0.94[AFR][1000 genomes];0.87[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9500953	0.94[AFR][1000 genomes]
rs9500954	0.88[AFR][1000 genomes];0.87[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9500959	0.89[AFR][1000 genomes];0.87[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9501680	0.94[AFR][1000 genomes];0.87[AMR][1000 genomes];1.00[EUR][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	esv2758039	chr6:29469101-29672665	Flanking Active TSS Active TSS Strong transcription Enhancers Weak transcription Bivalent Enhancer Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	23 gene(s)	inside rSNPs	diseases
2	esv2759411	chr6:29469101-29672665	Active TSS Enhancers Flanking Active TSS Weak transcription Flanking Bivalent TSS/Enh Strong transcription Bivalent Enhancer Genic enhancers Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	23 gene(s)	inside rSNPs	diseases
3	nsv527037	chr6:29615822-29624112	Enhancers Weak transcription Flanking Active TSS Active TSS Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region	3 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:55 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:29617800-29619600	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
2	chr6:29617800-29622800	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
3	chr6:29618000-29619600	Weak transcription	H1 Cell Line	embryonic stem cell
4	chr6:29618000-29620200	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
5	chr6:29618000-29623200	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
6	chr6:29618000-29624000	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
7	chr6:29618200-29619400	Weak transcription	HUES48 Cell Line	embryonic stem cell
8	chr6:29618400-29619200	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
9	chr6:29618400-29619200	Weak transcription	Dnd41	blood
10	chr6:29618400-29619400	Weak transcription	iPS-15b Cell Line	embryonic stem cell
11	chr6:29618400-29619400	Weak transcription	iPS-18 Cell Line	embryonic stem cell
12	chr6:29618400-29619400	Weak transcription	iPS-20b Cell Line	embryonic stem cell
13	chr6:29618400-29619400	Weak transcription	Primary T helper cells PMA-I stimulated	--
14	chr6:29618400-29619400	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
15	chr6:29618400-29619400	Weak transcription	Rectal Mucosa Donor 31	rectum
16	chr6:29618400-29619400	Weak transcription	HepG2	liver
17	chr6:29618400-29619400	Weak transcription	HMEC	breast
18	chr6:29618400-29619400	Weak transcription	NHEK	skin
19	chr6:29618400-29619600	Weak transcription	ES-I3 Cell Line	embryonic stem cell
20	chr6:29618400-29619800	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
21	chr6:29618400-29619800	Weak transcription	Stomach Mucosa	stomach
22	chr6:29618400-29620000	Weak transcription	Fetal Heart	heart
23	chr6:29618400-29620000	Weak transcription	Pancreas	Pancrea
24	chr6:29618400-29620400	Weak transcription	Liver	Liver
25	chr6:29618400-29620800	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
26	chr6:29618400-29620800	Weak transcription	Brain Angular Gyrus	brain
27	chr6:29618400-29620800	Weak transcription	Brain Anterior Caudate	brain
28	chr6:29618400-29621000	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
29	chr6:29618400-29621000	Weak transcription	Pancreatic Islets	Pancreatic Islet
30	chr6:29618400-29621200	Weak transcription	Primary B cells from peripheral blood	blood
31	chr6:29618400-29621200	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
32	chr6:29618400-29621200	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
33	chr6:29618400-29621200	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
34	chr6:29618400-29621200	Weak transcription	Brain Inferior Temporal Lobe	brain
35	chr6:29618400-29621200	Weak transcription	Rectal Smooth Muscle	rectum
36	chr6:29618400-29621600	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
37	chr6:29618400-29621600	Weak transcription	Brain Cingulate Gyrus	brain
38	chr6:29618400-29623200	Weak transcription	Left Ventricle	heart
39	chr6:29618400-29623200	Weak transcription	GM12878-XiMat	blood
40	chr6:29618400-29623400	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
41	chr6:29618400-29624000	Weak transcription	H9 Cell Line	embryonic stem cell
42	chr6:29618400-29624000	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
43	chr6:29618400-29624600	Weak transcription	Right Atrium	heart
44	chr6:29618400-29629000	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
45	chr6:29618400-29629600	Weak transcription	Right Ventricle	heart
46	chr6:29618600-29619000	Weak transcription	HUES6 Cell Line	embryonic stem cell
47	chr6:29618600-29619600	Weak transcription	A549	lung
48	chr6:29618600-29620800	Weak transcription	Osteobl	bone
49	chr6:29618600-29621200	Weak transcription	Primary T helper cells fromperipheralblood	blood
50	chr6:29618600-29623200	Weak transcription	Breast Myoepithelial Primary Cells	Breast

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