Variant report

Variant	rs71599665
Chromosome Location	chr4:55896767-55896768
allele	A/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 17 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:13)

rs_ID	r²[population]
rs13105577	0.98[AFR][1000 genomes];0.86[EUR][1000 genomes]
rs13111365	0.83[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs34003005	0.91[EUR][1000 genomes]
rs34222805	0.83[EUR][1000 genomes]
rs34728762	0.86[EUR][1000 genomes]
rs35095184	0.84[AFR][1000 genomes];0.84[EUR][1000 genomes]
rs35699617	0.82[AFR][1000 genomes]
rs56180527	0.83[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs56404029	0.83[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs62306413	0.97[EUR][1000 genomes]
rs62306414	0.83[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs6826167	0.81[EUR][1000 genomes]
rs71599666	0.83[AMR][1000 genomes];0.97[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	nsv526344	chr4:55522488-56231119	Weak transcription Enhancers Active TSS Bivalent Enhancer Flanking Active TSS Strong transcription Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent/Poised TSS Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	25 gene(s)	inside rSNPs	diseases
2	nsv829939	chr4:55856771-56005011	Enhancers Flanking Bivalent TSS/Enh Genic enhancers Weak transcription Strong transcription Flanking Active TSS Bivalent/Poised TSS Active TSS Bivalent Enhancer ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	8 gene(s)	inside rSNPs	diseases
3	nsv432603	chr4:55877236-55970782	Weak transcription Genic enhancers Enhancers Strong transcription Flanking Active TSS Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	7 gene(s)	inside rSNPs	diseases
4	nsv524342	chr4:55891531-55921535	Enhancers Weak transcription ZNF genes & repeats Flanking Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:15 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr4:55892000-55896800	Weak transcription	HMEC	breast
2	chr4:55892200-55896800	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
3	chr4:55892200-55897400	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
4	chr4:55893800-55897200	Weak transcription	Duodenum Mucosa	Duodenum
5	chr4:55894200-55898600	Weak transcription	Placenta Amnion	Placenta Amnion
6	chr4:55895600-55897600	Enhancers	ES-UCSF4 Cell Line	embryonic stem cell
7	chr4:55895800-55897200	Enhancers	HUES64 Cell Line	embryonic stem cell
8	chr4:55895800-55897600	Enhancers	iPS-18 Cell Line	embryonic stem cell
9	chr4:55895800-55904600	Weak transcription	iPS-20b Cell Line	embryonic stem cell
10	chr4:55896000-55897400	Enhancers	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
11	chr4:55896400-55898600	Weak transcription	Right Atrium	heart
12	chr4:55896400-55898800	Weak transcription	H1 Cell Line	embryonic stem cell
13	chr4:55896400-55904400	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
14	chr4:55896600-55898800	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
15	chr4:55896600-55898800	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived

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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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