Variant report

Variant	rs6825441
Chromosome Location	chr4:62203758-62203759
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 18 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:15)

rs_ID	r²[population]
rs10032294	0.81[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs1032896	0.85[EUR][1000 genomes]
rs11131323	0.89[EUR][1000 genomes]
rs1116862	0.86[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs17291864	0.86[EUR][1000 genomes]
rs28692726	0.85[AMR][1000 genomes];0.95[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs2880363	0.85[EUR][1000 genomes]
rs4146017	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs55904225	0.86[ASN][1000 genomes]
rs6551624	0.85[AMR][1000 genomes];0.97[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs6822041	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs7685747	0.86[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs9631772	0.85[EUR][1000 genomes]
rs9685679	0.86[EUR][1000 genomes]
rs9995784	0.85[AMR][1000 genomes];0.95[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	nsv879075	chr4:62124531-62354791	Enhancers Flanking Active TSS Active TSS ZNF genes & repeats Weak transcription Strong transcription Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
2	nsv461376	chr4:62187646-62274626	Enhancers Flanking Active TSS Weak transcription ZNF genes & repeats Bivalent Enhancer Active TSS Strong transcription Flanking Bivalent TSS/Enh	Chromatin interactive region lncRNA	n/a	inside rSNPs	diseases
3	nsv594327	chr4:62187646-62274626	Enhancers Weak transcription Flanking Active TSS Bivalent Enhancer Active TSS ZNF genes & repeats Strong transcription Flanking Bivalent TSS/Enh	Chromatin interactive region lncRNA	n/a	inside rSNPs	diseases

No data

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr4:62198800-62207400	Weak transcription	Fetal Lung	lung
2	chr4:62201000-62204000	Enhancers	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
3	chr4:62202400-62203800	Enhancers	iPS-18 Cell Line	embryonic stem cell
4	chr4:62202600-62203800	Enhancers	H1 Cell Line	embryonic stem cell
5	chr4:62202600-62203800	Enhancers	Brain Dorsolateral Prefrontal Cortex	brain
6	chr4:62203200-62204000	Weak transcription	Brain Hippocampus Middle	brain
7	chr4:62203200-62205400	Weak transcription	Breast Myoepithelial Primary Cells	Breast
8	chr4:62203200-62208400	Weak transcription	Brain Substantia Nigra	brain
9	chr4:62203200-62209000	Weak transcription	Brain Cingulate Gyrus	brain
10	chr4:62203400-62203800	Weak transcription	Brain Inferior Temporal Lobe	brain
11	chr4:62203400-62204200	Enhancers	Fetal Brain Male	brain
12	chr4:62203400-62204600	Weak transcription	Brain Angular Gyrus	brain
13	chr4:62203400-62208200	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
14	chr4:62203400-62210000	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
15	chr4:62203600-62204600	Weak transcription	iPS-15b Cell Line	embryonic stem cell
16	chr4:62203600-62209600	Weak transcription	HUES48 Cell Line	embryonic stem cell
17	chr4:62203600-62209600	Weak transcription	HUES64 Cell Line	embryonic stem cell
18	chr4:62203600-62209600	Weak transcription	iPS-20b Cell Line	embryonic stem cell
19	chr4:62203600-62211800	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell

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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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