Variant report

Variant	rs4897503
Chromosome Location	chr6:131455383-131455384
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 14 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:10)

rs_ID	r²[population]
rs12525857	0.88[AFR][1000 genomes];0.87[EUR][1000 genomes]
rs12527468	0.86[AFR][1000 genomes];0.87[EUR][1000 genomes]
rs4895918	1.00[AFR][1000 genomes];0.96[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62422412	0.88[AFR][1000 genomes];0.86[EUR][1000 genomes]
rs62422414	0.88[AFR][1000 genomes];0.87[EUR][1000 genomes]
rs62422415	0.85[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9492831	0.87[EUR][1000 genomes]
rs9492834	0.81[AMR][1000 genomes];0.93[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs9492835	0.81[AMR][1000 genomes];0.93[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs9492836	0.84[AMR][1000 genomes];0.88[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:4 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1032955	chr6:131298803-131818502	Active TSS Weak transcription Enhancers Flanking Active TSS ZNF genes & repeats Bivalent/Poised TSS Genic enhancers Strong transcription Bivalent Enhancer Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	14 gene(s)	inside rSNPs	diseases
2	nsv538443	chr6:131298803-131818502	Active TSS Weak transcription ZNF genes & repeats Enhancers Strong transcription Flanking Active TSS Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS Genic enhancers Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	14 gene(s)	inside rSNPs	diseases
3	nsv830807	chr6:131390952-131581931	Enhancers Weak transcription Active TSS ZNF genes & repeats Genic enhancers Flanking Active TSS Bivalent/Poised TSS Strong transcription Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases
4	nsv886664	chr6:131443843-131754930	Weak transcription Flanking Active TSS Flanking Bivalent TSS/Enh Enhancers Active TSS Bivalent Enhancer Strong transcription ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	8 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs4897503	EPB41L2	Cis_1M	lymphoblastoid	RTeQTL

Chromatin state (count:19 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:131446000-131456200	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
2	chr6:131447200-131455800	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
3	chr6:131449000-131456000	Weak transcription	Fetal Brain Male	brain
4	chr6:131451200-131455800	Weak transcription	Monocytes-CD14+_RO01746	blood
5	chr6:131451400-131455600	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
6	chr6:131451400-131455600	Weak transcription	Cortex derived primary cultured neurospheres	brain
7	chr6:131451600-131455600	Weak transcription	HMEC	breast
8	chr6:131451600-131455800	Weak transcription	Muscle Satellite Cultured Cells	--
9	chr6:131451600-131455800	Weak transcription	HSMMtube	muscle
10	chr6:131451600-131455800	Weak transcription	NHEK	skin
11	chr6:131452000-131455600	Weak transcription	Liver	Liver
12	chr6:131452400-131455800	Weak transcription	HSMM	muscle
13	chr6:131453800-131455800	Weak transcription	Placenta	Placenta
14	chr6:131454400-131455600	Enhancers	HepG2	liver
15	chr6:131455000-131455800	Enhancers	Breast Myoepithelial Primary Cells	Breast
16	chr6:131455000-131455800	Enhancers	Ovary	ovary
17	chr6:131455000-131456200	Enhancers	Small Intestine	intestine
18	chr6:131455200-131455400	Enhancers	Fetal Muscle Trunk	muscle
19	chr6:131455200-131455800	Enhancers	Dnd41	blood

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dbSNP/dbVar ID: rs12345 /nsv7879
a single nucleotide as 0-based coordinates: chr1:12345
chromosomal regions: chr1:12345-34567

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