Variant report

Variant	rs6842359
Chromosome Location	chr4:119320507-119320508
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 17 )
Associated
traits (count: 3 )

rSNPs within LD-proxies of this variant (count:7)

rs_ID	r²[population]
rs10023905	0.81[AMR][1000 genomes];0.88[ASN][1000 genomes]
rs12646848	0.82[ASN][1000 genomes]
rs12649681	0.86[ASN][1000 genomes]
rs1818521	0.81[AMR][1000 genomes];0.88[ASN][1000 genomes]
rs6813677	0.87[ASN][1000 genomes]
rs6817520	0.81[AMR][1000 genomes];0.88[ASN][1000 genomes]
rs6858147	0.81[AMR][1000 genomes];0.85[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:10 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv519017	chr4:118828807-119771481	Strong transcription Weak transcription Enhancers Flanking Active TSS Bivalent Enhancer Genic enhancers Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	39 gene(s)	inside rSNPs	diseases
2	esv34038	chr4:119035124-119455391	Enhancers Strong transcription Transcr. at gene 5' and 3' Flanking Active TSS Weak transcription Genic enhancers Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	23 gene(s)	inside rSNPs	diseases
3	nsv1001138	chr4:119095147-119461837	Active TSS Flanking Bivalent TSS/Enh Enhancers Flanking Active TSS Bivalent Enhancer Weak transcription Strong transcription ZNF genes & repeats Bivalent/Poised TSS Transcr. at gene 5' and 3' Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	23 gene(s)	inside rSNPs	diseases
4	nsv537230	chr4:119095147-119461837	Active TSS Enhancers Bivalent/Poised TSS Bivalent Enhancer Weak transcription Flanking Active TSS Genic enhancers Flanking Bivalent TSS/Enh Strong transcription Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	23 gene(s)	inside rSNPs	diseases
5	nsv1002771	chr4:119125361-119571237	Enhancers Weak transcription Strong transcription Flanking Active TSS ZNF genes & repeats Active TSS Bivalent Enhancer 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 target site	28 gene(s)	inside rSNPs	diseases
6	nsv1003731	chr4:119138262-119506032	Active TSS Bivalent Enhancer Weak transcription Enhancers Flanking Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3' ZNF genes & repeats Genic enhancers Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	22 gene(s)	inside rSNPs	diseases
7	nsv482277	chr4:119261543-119408886	Enhancers Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Weak transcription Transcr. at gene 5' and 3' Flanking Active TSS Active TSS Genic enhancers ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
8	esv1793390	chr4:119294686-119390371	Enhancers ZNF genes & repeats Weak transcription Flanking Active TSS Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
9	esv3355840	chr4:119296640-119774737	Strong transcription Weak transcription Enhancers Genic enhancers Active TSS Flanking Active TSS Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	20 gene(s)	inside rSNPs	diseases
10	esv1826457	chr4:119315822-119387097	Enhancers Weak transcription Bivalent Enhancer Active TSS Flanking Active TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases

mRNA abundance (count:3)

SNP	Gene	Cis/trans	Tissue	Source
rs6842359	SNHG8	cis	Esophagus Muscularis	GTEx
rs6842359	CEP170P1	cis	Skin Sun Exposed Lower leg	GTEx
rs6842359	SNHG8	cis	Skin Sun Exposed Lower leg	GTEx

Chromatin state (count:26 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr4:119316200-119320800	Enhancers	ES-I3 Cell Line	embryonic stem cell
2	chr4:119316800-119321600	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
3	chr4:119318000-119322200	Enhancers	Fetal Adrenal Gland	Adrenal Gland
4	chr4:119318200-119322600	Enhancers	HUES6 Cell Line	embryonic stem cell
5	chr4:119318400-119321800	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Female	--
6	chr4:119318400-119323200	Enhancers	Primary hematopoietic stem cells	blood
7	chr4:119318400-119323800	Enhancers	Primary hematopoietic stem cells short term culture	blood
8	chr4:119318600-119321400	Weak transcription	iPS-18 Cell Line	embryonic stem cell
9	chr4:119319200-119321000	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
10	chr4:119319600-119321600	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Male	--
11	chr4:119319600-119322400	Enhancers	iPS-15b Cell Line	embryonic stem cell
12	chr4:119319600-119325000	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
13	chr4:119319800-119320800	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
14	chr4:119319800-119321200	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
15	chr4:119319800-119321200	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
16	chr4:119319800-119321400	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
17	chr4:119319800-119321600	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
18	chr4:119320000-119321200	Weak transcription	iPS-20b Cell Line	embryonic stem cell
19	chr4:119320000-119321400	Weak transcription	HUES64 Cell Line	embryonic stem cell
20	chr4:119320200-119321200	Weak transcription	HUES48 Cell Line	embryonic stem cell
21	chr4:119320200-119321200	Weak transcription	NHEK	skin
22	chr4:119320200-119321400	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
23	chr4:119320200-119321600	Weak transcription	H1 Cell Line	embryonic stem cell
24	chr4:119320200-119321600	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
25	chr4:119320200-119323400	Weak transcription	HMEC	breast
26	chr4:119320400-119321600	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin

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