Variant report

Variant	rs12898517
Chromosome Location	chr15:60317202-60317203
allele	A/T
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]
rs11634171	0.88[ASN][1000 genomes]
rs12595222	0.81[EUR][1000 genomes]
rs12917568	0.93[CEU][hapmap];0.90[CHB][hapmap];0.85[JPT][hapmap]
rs143831	0.94[ASN][1000 genomes]
rs17302895	0.88[ASN][1000 genomes]
rs2414659	0.80[EUR][1000 genomes]
rs28630637	0.87[ASN][1000 genomes]
rs4775232	0.93[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs4775233	0.82[AMR][1000 genomes];0.99[ASN][1000 genomes]
rs7166263	0.86[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs7174372	0.96[ASN][1000 genomes]
rs7174491	0.88[ASN][1000 genomes]
rs8032252	1.00[CEU][hapmap];0.90[CHB][hapmap];0.87[JPT][hapmap]
rs8032588	1.00[CEU][hapmap];0.86[CHB][hapmap];0.87[JPT][hapmap]
rs8039361	0.82[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	nsv904280	chr15:60042722-60524025	Bivalent/Poised TSS Enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer Weak transcription Active TSS Flanking Active TSS ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3' Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases
2	nsv833028	chr15:60227565-60418112	Weak transcription Enhancers Bivalent Enhancer Bivalent/Poised TSS Flanking Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Active TSS Genic enhancers Transcr. at gene 5' and 3' Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
3	nsv569607	chr15:60303749-60347452	Enhancers Weak transcription Flanking Active TSS Bivalent Enhancer ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases

No data

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:60314600-60317400	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
2	chr15:60314600-60318000	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
3	chr15:60314600-60318000	Weak transcription	Primary hematopoietic stem cells short term culture	blood
4	chr15:60314800-60317400	Weak transcription	H1 Cell Line	embryonic stem cell
5	chr15:60314800-60317400	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
6	chr15:60315200-60317400	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
7	chr15:60315200-60318000	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
8	chr15:60315600-60317600	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
9	chr15:60316400-60318000	Enhancers	iPS-15b Cell Line	embryonic stem cell
10	chr15:60316400-60318400	Enhancers	iPS-18 Cell Line	embryonic stem cell
11	chr15:60316400-60319200	Enhancers	Ovary	ovary
12	chr15:60316600-60318600	Enhancers	HUES64 Cell Line	embryonic stem cell
13	chr15:60316800-60318200	Enhancers	HUES48 Cell Line	embryonic stem cell
14	chr15:60317000-60317600	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
15	chr15:60317200-60318200	Enhancers	iPS-20b Cell Line	embryonic stem cell
16	chr15:60317200-60318400	Enhancers	ES-I3 Cell Line	embryonic stem cell
17	chr15:60317200-60318400	Enhancers	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
18	chr15:60317200-60318400	Enhancers	HUES6 Cell Line	embryonic stem cell
19	chr15:60317200-60318600	Enhancers	hESC Derived CD56+ Mesoderm 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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