Variant report

Variant	rs7755798
Chromosome Location	chr6:109637154-109637155
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr6:109631513..109637347-chr6:109638223..109642715,6	K562	blood:
2	chr6:109635254..109638120-chr6:109702756..109704791,3	MCF-7	breast:
3	chr6:109635700..109637262-chr6:109660535..109662631,2	K562	blood:
4	chr6:109625245..109626774-chr6:109636404..109638481,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000201023	Chromatin interaction
ENSG00000135535	Chromatin interaction
ENSG00000260273	Chromatin interaction

Extended variants
information (count: 18 )
Associated
traits (count: 2 )

rSNPs within LD-proxies of this variant (count:17)

rs_ID	r²[population]
rs1028244	0.94[CEU][hapmap];0.90[CHB][hapmap];0.95[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.89[TSI][hapmap];0.80[AMR][1000 genomes];0.94[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs1040285	0.83[CEU][hapmap]
rs1113665	0.83[CEU][hapmap]
rs1341269	0.83[CEU][hapmap]
rs352834	1.00[JPT][hapmap];0.83[MKK][hapmap];0.93[TSI][hapmap];0.81[AMR][1000 genomes]
rs436872	0.85[AMR][1000 genomes]
rs4590308	0.83[CEU][hapmap]
rs4946952	0.83[CEU][hapmap]
rs6919557	0.82[CEU][hapmap]
rs7752028	0.94[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs7775345	0.93[CEU][hapmap]
rs830551	0.83[AMR][1000 genomes]
rs830555	0.83[AMR][1000 genomes]
rs9320284	0.93[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.89[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs9374067	0.83[CEU][hapmap]
rs9384702	0.93[AMR][1000 genomes];0.95[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs9398190	0.83[CEU][hapmap]

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

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv5435	chr6:109633035-109669127	Weak transcription Flanking Active TSS Enhancers Bivalent Enhancer Strong transcription Active TSS Genic enhancers	TF binding region Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases

mRNA abundance (count:2)

SNP	Gene	Cis/trans	Tissue	Source
rs7755798	PDSS2	cis	parietal	SCAN
rs7755798	PRDM1	cis	parietal	SCAN

Chromatin state (count:37 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:109619400-109638000	Weak transcription	HepG2	liver
2	chr6:109626200-109638800	Weak transcription	Thymus	Thymus
3	chr6:109627600-109639000	Weak transcription	Left Ventricle	heart
4	chr6:109629600-109639800	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
5	chr6:109629600-109654000	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
6	chr6:109634200-109641200	Enhancers	Fetal Muscle Leg	muscle
7	chr6:109634400-109644000	Weak transcription	Spleen	Spleen
8	chr6:109635200-109639800	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
9	chr6:109635200-109639800	Enhancers	Brain Cingulate Gyrus	brain
10	chr6:109635200-109641200	Enhancers	Brain Hippocampus Middle	brain
11	chr6:109635600-109637800	Weak transcription	Liver	Liver
12	chr6:109635600-109639400	Weak transcription	K562	blood
13	chr6:109635600-109646600	Weak transcription	HSMMtube	muscle
14	chr6:109635800-109639000	Weak transcription	Psoas Muscle	Psoas
15	chr6:109635800-109639000	Weak transcription	Skeletal Muscle Female	skeletal muscle
16	chr6:109635800-109639200	Weak transcription	Pancreas	Pancrea
17	chr6:109636200-109637200	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Female	--
18	chr6:109636200-109637400	Enhancers	Primary hematopoietic stem cells	blood
19	chr6:109636200-109637400	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
20	chr6:109636200-109639000	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Male	--
21	chr6:109636200-109641800	Enhancers	Fetal Intestine Large	intestine
22	chr6:109636200-109642000	Enhancers	Fetal Intestine Small	intestine
23	chr6:109636400-109641200	Enhancers	Brain Inferior Temporal Lobe	brain
24	chr6:109636600-109637400	Enhancers	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
25	chr6:109636600-109637400	Enhancers	Brain Germinal Matrix	brain
26	chr6:109636600-109639000	Enhancers	Rectal Mucosa Donor 31	rectum
27	chr6:109636600-109639000	Enhancers	Skeletal Muscle Male	skeletal muscle
28	chr6:109636800-109637400	Enhancers	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
29	chr6:109636800-109637800	Enhancers	Fetal Muscle Trunk	muscle
30	chr6:109636800-109638000	Weak transcription	Brain Substantia Nigra	brain
31	chr6:109636800-109638200	Weak transcription	Primary hematopoietic stem cells short term culture	blood
32	chr6:109636800-109639400	Enhancers	Brain Anterior Caudate	brain
33	chr6:109637000-109637200	Enhancers	Sigmoid Colon	Sigmoid Colon
34	chr6:109637000-109637400	Enhancers	H9 Derived Neuron Cultured Cells	ES cell derived
35	chr6:109637000-109637800	Weak transcription	Brain Angular Gyrus	brain
36	chr6:109637000-109638000	Enhancers	Brain Dorsolateral Prefrontal Cortex	brain
37	chr6:109637000-109640200	Weak transcription	Fetal Kidney	kidney

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