Variant report

Variant	rs11587602
Chromosome Location	chr1:171570158-171570159
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-PRRC2C-5	chr1:171570022-171570952	NONHSAT007542

Extended variants
information (count: 25 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:20)

rs_ID	r²[population]
rs10082212	0.81[ASN][1000 genomes]
rs10753138	0.85[CHB][hapmap];0.94[JPT][hapmap];0.86[ASN][1000 genomes]
rs10913141	0.82[YRI][hapmap]
rs10913165	0.82[AFR][1000 genomes];0.81[AMR][1000 genomes];0.81[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs11589384	0.85[ASN][1000 genomes]
rs12025905	0.82[YRI][hapmap]
rs12078309	0.84[AFR][1000 genomes];0.88[AMR][1000 genomes];0.93[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs12079162	0.94[CEU][hapmap];0.85[CHB][hapmap];0.94[JPT][hapmap];1.00[YRI][hapmap];0.84[AFR][1000 genomes];0.88[AMR][1000 genomes];0.93[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs12239382	0.82[YRI][hapmap]
rs2207192	0.80[AMR][1000 genomes]
rs2272810	0.86[ASN][1000 genomes]
rs2421850	0.81[ASN][1000 genomes]
rs28831777	0.84[ASN][1000 genomes]
rs2901557	0.84[ASN][1000 genomes]
rs3736679	0.84[ASN][1000 genomes]
rs3817772	0.91[AFR][1000 genomes];0.90[AMR][1000 genomes];0.93[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs4916387	0.84[CHB][hapmap];0.93[JPT][hapmap];0.85[YRI][hapmap]
rs61814748	0.92[ASN][1000 genomes]
rs6703132	0.85[CHB][hapmap];0.94[JPT][hapmap];1.00[YRI][hapmap];0.92[ASN][1000 genomes]
rs7536695	0.87[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:5 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	esv14617	chr1:171016086-171726961	Enhancers Weak transcription Flanking Active TSS Strong transcription Genic enhancers Active TSS ZNF genes & repeats Bivalent Enhancer Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	52 gene(s)	inside rSNPs	diseases
2	esv3512995	chr1:171329123-171994470	Enhancers Weak transcription Flanking Active TSS Active TSS Genic enhancers Strong transcription ZNF genes & repeats Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	56 gene(s)	inside rSNPs	diseases
3	esv3512997	chr1:171329123-171994470	Strong transcription Enhancers Weak transcription Flanking Active TSS Active TSS Genic enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	56 gene(s)	inside rSNPs	diseases
4	esv12447	chr1:171556291-171726822	Strong transcription Weak transcription Enhancers ZNF genes & repeats Flanking Active TSS Active TSS Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	23 gene(s)	inside rSNPs	diseases
5	esv3399610	chr1:171569794-171575719	Weak transcription Enhancers	lncRNA	n/a	inside rSNPs	diseases

No data

Chromatin state (count:23 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr1:171558800-171573200	Weak transcription	Small Intestine	intestine
2	chr1:171561600-171572200	Weak transcription	Aorta	Aorta
3	chr1:171561800-171570200	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
4	chr1:171561800-171570200	Weak transcription	Lung	lung
5	chr1:171561800-171570400	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
6	chr1:171561800-171572200	Weak transcription	iPS-15b Cell Line	embryonic stem cell
7	chr1:171561800-171576600	Weak transcription	Brain Substantia Nigra	brain
8	chr1:171562000-171572000	Weak transcription	ES-I3 Cell Line	embryonic stem cell
9	chr1:171562200-171571800	Weak transcription	HUES48 Cell Line	embryonic stem cell
10	chr1:171562200-171575600	Weak transcription	HepG2	liver
11	chr1:171562800-171572000	Weak transcription	HUES64 Cell Line	embryonic stem cell
12	chr1:171562800-171572200	Weak transcription	iPS-18 Cell Line	embryonic stem cell
13	chr1:171563200-171572000	Weak transcription	H1 Cell Line	embryonic stem cell
14	chr1:171564000-171572200	Weak transcription	Fetal Kidney	kidney
15	chr1:171564400-171570600	Weak transcription	Brain Cingulate Gyrus	brain
16	chr1:171564400-171572000	Weak transcription	HUES6 Cell Line	embryonic stem cell
17	chr1:171564400-171573000	Weak transcription	Adipose Nuclei	Adipose
18	chr1:171564800-171570200	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
19	chr1:171566200-171572000	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
20	chr1:171569200-171576400	Weak transcription	GM12878-XiMat	blood
21	chr1:171569400-171570200	Enhancers	Liver	Liver
22	chr1:171569600-171570200	Weak transcription	Brain Anterior Caudate	brain
23	chr1:171570000-171570200	Enhancers	Pancreas	Pancrea

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