Variant report

Variant	rs871800
Chromosome Location	chr11:119485081-119485082
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr11:119476943..119479967-chr11:119481875..119486010,4	K562	blood:

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-PVRL1-1	chr11:119478390-119486120	XLOC_009577

Variant related genes	Relation type
ENSG00000254561	Chromatin interaction

Extended variants
information (count: 34 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:33)

rs_ID	r²[population]
rs10790321	0.86[ASN][1000 genomes]
rs10790322	0.88[ASN][1000 genomes]
rs10892411	0.83[ASN][1000 genomes]
rs10892419	0.88[ASN][1000 genomes]
rs10892420	1.00[CHB][hapmap];0.90[JPT][hapmap];0.90[ASN][1000 genomes]
rs10892421	0.82[AMR][1000 genomes];0.84[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs10892422	0.82[CHB][hapmap]
rs11217350	0.90[ASN][1000 genomes]
rs12417207	0.88[ASN][1000 genomes]
rs12421445	0.86[ASN][1000 genomes]
rs1355191	0.82[CHB][hapmap];0.89[YRI][hapmap];0.84[AMR][1000 genomes];0.86[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs1567376	0.84[ASN][1000 genomes]
rs1567377	0.90[ASN][1000 genomes]
rs2136419	0.84[AFR][1000 genomes]
rs2271250	0.82[CEU][hapmap]
rs2887245	0.83[ASN][1000 genomes]
rs3751020	0.95[CHB][hapmap];0.91[JPT][hapmap];0.90[ASN][1000 genomes]
rs4245196	0.95[CHB][hapmap];0.91[JPT][hapmap];0.88[ASN][1000 genomes]
rs4328225	0.89[ASN][1000 genomes]
rs4354701	0.96[CEU][hapmap];0.96[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs4367956	0.80[CEU][hapmap]
rs4499013	0.96[CEU][hapmap];0.95[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs4514433	0.89[AMR][1000 genomes];0.93[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs4938691	0.86[CHB][hapmap]
rs6589764	0.87[ASN][1000 genomes]
rs6589766	0.85[CEU][hapmap];0.83[CHB][hapmap];0.91[JPT][hapmap]
rs7925390	0.82[ASN][1000 genomes]
rs7928238	0.95[AMR][1000 genomes];0.96[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs7934906	0.95[EUR][1000 genomes]
rs7950231	0.88[ASN][1000 genomes]
rs884395	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs906820	0.95[CHB][hapmap];0.91[JPT][hapmap];0.88[ASN][1000 genomes]
rs906828	0.80[ASN][1000 genomes]

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

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1042460	chr11:119430954-119540452	Enhancers Flanking Active TSS Weak transcription Flanking Bivalent TSS/Enh Strong transcription Bivalent Enhancer Active TSS Bivalent/Poised TSS Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:29 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr11:119471800-119485800	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
2	chr11:119479200-119485200	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
3	chr11:119480000-119486000	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
4	chr11:119480400-119485800	Weak transcription	Pancreas	Pancrea
5	chr11:119482600-119488600	Weak transcription	Right Atrium	heart
6	chr11:119483600-119487600	Enhancers	Brain Substantia Nigra	brain
7	chr11:119483600-119487800	Enhancers	Brain Anterior Caudate	brain
8	chr11:119483600-119487800	Enhancers	Brain Hippocampus Middle	brain
9	chr11:119483600-119488000	Enhancers	Brain Cingulate Gyrus	brain
10	chr11:119483800-119488000	Enhancers	Brain Inferior Temporal Lobe	brain
11	chr11:119484000-119485800	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
12	chr11:119484000-119487000	Enhancers	H1 Cell Line	embryonic stem cell
13	chr11:119484200-119485800	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
14	chr11:119484200-119485800	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
15	chr11:119484200-119485800	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
16	chr11:119484200-119485800	Weak transcription	HMEC	breast
17	chr11:119484200-119485800	Weak transcription	NHEK	skin
18	chr11:119484600-119485800	Enhancers	iPS-18 Cell Line	embryonic stem cell
19	chr11:119484600-119485800	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
20	chr11:119484600-119485800	Enhancers	HepG2	liver
21	chr11:119484600-119487200	Enhancers	ES-I3 Cell Line	embryonic stem cell
22	chr11:119484600-119487800	Enhancers	HUES64 Cell Line	embryonic stem cell
23	chr11:119484800-119485400	Enhancers	H9 Cell Line	embryonic stem cell
24	chr11:119484800-119485800	Enhancers	HUES6 Cell Line	embryonic stem cell
25	chr11:119484800-119486000	Enhancers	iPS DF 6.9 Cell Line	embryonic stem cell
26	chr11:119484800-119486000	Enhancers	ES-UCSF4 Cell Line	embryonic stem cell
27	chr11:119484800-119487400	Enhancers	Brain Angular Gyrus	brain
28	chr11:119485000-119485400	Enhancers	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
29	chr11:119485000-119485800	Enhancers	HUES48 Cell Line	embryonic stem cell

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