Variant report

Variant	rs7359
Chromosome Location	chr4:16164489-16164490
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	chr4:16164227..16166422-chr4:16226469..16228031,2	K562	blood:

Variant related genes	Relation type
ENSG00000169762	Chromatin interaction

Extended variants
information (count: 29 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:26)

rs_ID	r²[population]
rs10007592	1.00[JPT][hapmap]
rs10516296	1.00[JPT][hapmap]
rs1373109	1.00[JPT][hapmap]
rs1621739	0.92[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1625980	0.86[ASN][1000 genomes]
rs1662651	0.94[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1662653	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs16893097	0.83[ASN][1000 genomes]
rs16893153	0.83[ASN][1000 genomes]
rs16893164	1.00[JPT][hapmap]
rs28395234	0.96[ASN][1000 genomes]
rs28403341	1.00[JPT][hapmap]
rs28427433	0.94[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs28619251	0.96[ASN][1000 genomes]
rs317852	0.94[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs317861	0.86[ASN][1000 genomes]
rs317864	0.86[ASN][1000 genomes]
rs35777961	0.87[EUR][1000 genomes]
rs4501221	0.94[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4635814	0.83[ASN][1000 genomes]
rs56106162	0.83[ASN][1000 genomes]
rs6823623	1.00[JPT][hapmap]
rs73234637	0.90[ASN][1000 genomes]
rs7664407	1.00[JPT][hapmap]
rs7668729	0.86[CHB][hapmap];1.00[JPT][hapmap];0.88[MEX][hapmap];0.90[ASN][1000 genomes]
rs9946	0.86[CHB][hapmap];1.00[JPT][hapmap];0.96[ASN][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	nsv998299	chr4:16031459-16226466	Bivalent/Poised TSS Weak transcription Enhancers Strong transcription Bivalent Enhancer Flanking Active TSS Active TSS Flanking Bivalent TSS/Enh Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	4 gene(s)	inside rSNPs	diseases
2	nsv1004821	chr4:16055996-16830629	Enhancers Flanking Active TSS Weak transcription Strong transcription Bivalent/Poised TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Active TSS Bivalent Enhancer Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	22 gene(s)	inside rSNPs	diseases
3	nsv537046	chr4:16055996-16830629	Enhancers Flanking Active TSS ZNF genes & repeats Strong transcription Weak transcription Genic enhancers Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	22 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs7359	FLJ39653	cis	parietal	SCAN

Chromatin state (count:124 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr4:16150800-16166600	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
2	chr4:16153200-16165200	Weak transcription	HSMM	muscle
3	chr4:16153600-16165600	Weak transcription	Pancreatic Islets	Pancreatic Islet
4	chr4:16157200-16166800	Weak transcription	Brain Angular Gyrus	brain
5	chr4:16157600-16164600	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
6	chr4:16157800-16164600	Weak transcription	Cortex derived primary cultured neurospheres	brain
7	chr4:16157800-16170600	Weak transcription	iPS-15b Cell Line	embryonic stem cell
8	chr4:16157800-16180000	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
9	chr4:16157800-16180400	Weak transcription	ES-I3 Cell Line	embryonic stem cell
10	chr4:16158000-16165000	Weak transcription	Brain Cingulate Gyrus	brain
11	chr4:16158000-16175400	Weak transcription	NHDF-Ad	bronchial
12	chr4:16159400-16164600	Weak transcription	Muscle Satellite Cultured Cells	--
13	chr4:16159600-16164800	Weak transcription	K562	blood
14	chr4:16159800-16167400	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
15	chr4:16160000-16164600	Weak transcription	Brain Germinal Matrix	brain
16	chr4:16160000-16167600	Weak transcription	HepG2	liver
17	chr4:16160200-16164600	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
18	chr4:16160200-16164600	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
19	chr4:16160200-16164800	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
20	chr4:16160200-16165000	Weak transcription	HUES6 Cell Line	embryonic stem cell
21	chr4:16160200-16173800	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
22	chr4:16160400-16164600	Weak transcription	iPS-18 Cell Line	embryonic stem cell
23	chr4:16160400-16164600	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
24	chr4:16160400-16164800	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
25	chr4:16160400-16165000	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
26	chr4:16160400-16165000	Weak transcription	Right Ventricle	heart
27	chr4:16160400-16165200	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
28	chr4:16160400-16166200	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
29	chr4:16160400-16167800	Weak transcription	H1 Cell Line	embryonic stem cell
30	chr4:16160400-16182400	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
31	chr4:16160600-16167800	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
32	chr4:16160600-16172200	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
33	chr4:16160800-16176800	Strong transcription	Primary B cells from cord blood	blood
34	chr4:16161000-16182600	Strong transcription	Fetal Thymus	thymus
35	chr4:16161600-16176200	Strong transcription	Primary hematopoietic stem cells short term culture	blood
36	chr4:16161600-16181800	Strong transcription	Primary neutrophils fromperipheralblood	blood
37	chr4:16161600-16182600	Strong transcription	Primary monocytes fromperipheralblood	blood
38	chr4:16161600-16182800	Strong transcription	Breast Myoepithelial Primary Cells	Breast
39	chr4:16161600-16186000	Weak transcription	Primary T killer memory cells from peripheral blood	blood
40	chr4:16161800-16164600	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
41	chr4:16161800-16170000	Strong transcription	Adipose Nuclei	Adipose
42	chr4:16161800-16193200	Strong transcription	Monocytes-CD14+_RO01746	blood
43	chr4:16162000-16165000	Weak transcription	Esophagus	oesophagus
44	chr4:16162000-16165000	Weak transcription	Gastric	stomach
45	chr4:16162000-16165200	Weak transcription	Pancreas	Pancrea
46	chr4:16162000-16165400	Weak transcription	Aorta	Aorta
47	chr4:16162000-16165400	Weak transcription	Lung	lung
48	chr4:16162000-16165800	Weak transcription	Small Intestine	intestine
49	chr4:16162000-16166000	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
50	chr4:16162000-16167200	Weak transcription	Osteobl	bone

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