Variant report

Variant	rs5027562
Chromosome Location	chr5:124343829-124343830
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-RP11-43D2.2.1-18	chr5:124343796-124344707	l_3007_chr5:124326525-124338943_testes

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

rSNPs within LD-proxies of this variant (count:16)

rs_ID	r²[population]
rs10043770	0.89[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10155594	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13357021	0.89[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13359555	0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs28620272	0.89[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs28697281	0.85[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3936060	1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4272129	0.89[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6862525	1.00[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6888931	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7707465	0.89[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7708412	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7728062	0.89[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9327345	0.92[CEU][hapmap];1.00[CHB][hapmap];0.89[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9327346	1.00[CEU][hapmap];1.00[CHB][hapmap];0.85[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9327347	1.00[CEU][hapmap];1.00[CHB][hapmap];0.85[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:2 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv882822	chr5:124250018-124449375	Flanking Active TSS Enhancers Weak transcription ZNF genes & repeats Bivalent Enhancer Active TSS Strong transcription Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases
2	nsv830474	chr5:124263628-124431299	Weak transcription Enhancers Flanking Active TSS Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent Enhancer Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:20 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr5:124323400-124348600	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
2	chr5:124342000-124347000	Weak transcription	Fetal Kidney	kidney
3	chr5:124342200-124346000	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
4	chr5:124342200-124346000	Weak transcription	Fetal Muscle Leg	muscle
5	chr5:124342200-124346600	Weak transcription	Pancreatic Islets	Pancreatic Islet
6	chr5:124342200-124347000	Weak transcription	Fetal Intestine Large	intestine
7	chr5:124342400-124348600	Weak transcription	H9 Cell Line	embryonic stem cell
8	chr5:124342600-124344600	Enhancers	Primary B cells from cord blood	blood
9	chr5:124342600-124346000	Weak transcription	iPS-20b Cell Line	embryonic stem cell
10	chr5:124342600-124346200	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
11	chr5:124342800-124346200	Weak transcription	iPS-18 Cell Line	embryonic stem cell
12	chr5:124342800-124347800	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
13	chr5:124343000-124344600	Weak transcription	Primary hematopoietic stem cells short term culture	blood
14	chr5:124343000-124345000	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
15	chr5:124343000-124346000	Weak transcription	HUES64 Cell Line	embryonic stem cell
16	chr5:124343000-124346000	Weak transcription	iPS-15b Cell Line	embryonic stem cell
17	chr5:124343000-124346400	Weak transcription	HUES48 Cell Line	embryonic stem cell
18	chr5:124343200-124346000	Weak transcription	GM12878-XiMat	blood
19	chr5:124343600-124347000	Weak transcription	Primary B cells from peripheral blood	blood
20	chr5:124343800-124344000	Flanking Active TSS	Dnd41	blood

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