Variant report

Variant	rs335334
Chromosome Location	chr4:62335188-62335189
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 22 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:18)

rs_ID	r²[population]
rs1456883	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs17090513	1.00[MEX][hapmap]
rs335271	1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs335272	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs335273	1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs335294	0.84[ASW][hapmap];1.00[CHB][hapmap];0.91[CHD][hapmap];1.00[JPT][hapmap];0.81[MKK][hapmap];1.00[ASN][1000 genomes]
rs335295	1.00[CHB][hapmap];1.00[ASN][1000 genomes]
rs335296	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs335324	0.83[ASW][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[JPT][hapmap];0.85[MKK][hapmap]
rs335329	1.00[CHB][hapmap];0.95[ASN][1000 genomes]
rs335332	1.00[CHB][hapmap];1.00[JPT][hapmap];0.94[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs335335	0.94[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs335336	0.89[CHD][hapmap];1.00[GIH][hapmap];0.88[TSI][hapmap]
rs335338	0.90[CHD][hapmap];1.00[GIH][hapmap];0.88[TSI][hapmap]
rs6826967	1.00[MEX][hapmap]
rs6841033	1.00[MEX][hapmap]
rs6856328	1.00[MEX][hapmap]
rs9312077	0.95[ASN][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	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	nsv868844	chr4:62241702-62497248	Weak transcription Enhancers Bivalent/Poised TSS Strong transcription Active TSS Flanking Active TSS ZNF genes & repeats Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
3	nsv879076	chr4:62251077-62354791	Enhancers Weak transcription Active TSS Bivalent Enhancer Flanking Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
4	esv2753138	chr4:62271444-62442507	Enhancers Weak transcription Bivalent Enhancer ZNF genes & repeats Active TSS Flanking Active TSS Bivalent/Poised TSS Strong transcription	TF binding region CpG island Chromatin interactive region	2 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:12 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr4:62332800-62336000	Enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin
2	chr4:62333000-62336200	Enhancers	NHEK	skin
3	chr4:62333200-62335400	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
4	chr4:62333400-62336200	Enhancers	HMEC	breast
5	chr4:62334200-62339600	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
6	chr4:62334200-62339600	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
7	chr4:62334400-62339800	Weak transcription	ES-I3 Cell Line	embryonic stem cell
8	chr4:62334400-62339800	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
9	chr4:62334400-62339800	Weak transcription	Brain Cingulate Gyrus	brain
10	chr4:62334800-62336200	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
11	chr4:62335000-62335200	Enhancers	Brain Anterior Caudate	brain
12	chr4:62335000-62335400	Enhancers	Fetal Adrenal Gland	Adrenal Gland

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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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