Variant report

Variant	rs10216012
Chromosome Location	chr7:121968547-121968548
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-PTPRZ1-3	chr7:121968523-121968619	ENSG00000240499.1
2	lnc-PTPRZ1-3	chr7:121968523-121968562	ENSG00000240499.3
3	lnc-PTPRZ1-3	chr7:121968533-121968562	ENSG00000240499.3
4	lnc-PTPRZ1-3	chr7:121968527-121968619	ENSG00000240499.3
5	lnc-PTPRZ1-3	chr7:121968523-121968619	ENSG00000240499.3

Extended variants
information (count: 56 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:54)

rs_ID	r²[population]
rs10216014	1.00[CEU][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10229985	1.00[CEU][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.92[AFR][1000 genomes];0.91[AMR][1000 genomes];1.00[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs10238734	0.88[AFR][1000 genomes];0.91[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10241224	1.00[CEU][hapmap];0.87[EUR][1000 genomes]
rs10247924	1.00[CEU][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.90[AFR][1000 genomes];0.94[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10252242	0.87[ASN][1000 genomes]
rs10277674	1.00[CEU][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.92[AFR][1000 genomes];0.94[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10277721	0.93[AFR][1000 genomes];0.94[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10277785	0.93[AFR][1000 genomes];0.91[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10280017	0.87[ASN][1000 genomes]
rs10280555	1.00[CEU][hapmap];1.00[JPT][hapmap];0.93[YRI][hapmap];0.92[AFR][1000 genomes];0.91[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10487223	1.00[CEU][hapmap];1.00[JPT][hapmap];0.92[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs12532356	0.80[CEU][hapmap];1.00[JPT][hapmap];0.87[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12538206	0.87[ASN][1000 genomes]
rs1443752	0.82[CEU][hapmap];1.00[JPT][hapmap];0.88[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs16870811	1.00[CEU][hapmap];1.00[JPT][hapmap];0.90[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs17144227	1.00[CEU][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17144315	1.00[CEU][hapmap];1.00[JPT][hapmap];0.92[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs17144328	1.00[CEU][hapmap];1.00[JPT][hapmap];0.90[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs17144333	1.00[CEU][hapmap];1.00[JPT][hapmap];0.90[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs17144341	1.00[CEU][hapmap];0.88[EUR][1000 genomes]
rs17364956	1.00[JPT][hapmap];0.86[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17365158	0.82[CEU][hapmap];1.00[JPT][hapmap];0.86[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17365759	1.00[CEU][hapmap];0.87[EUR][1000 genomes]
rs17461878	1.00[CEU][hapmap];1.00[JPT][hapmap];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17462307	0.87[CEU][hapmap];1.00[JPT][hapmap];0.85[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17462383	0.82[CEU][hapmap];1.00[JPT][hapmap];0.85[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17462418	0.80[CEU][hapmap];1.00[JPT][hapmap];0.85[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17462508	0.81[CEU][hapmap];1.00[JPT][hapmap];0.85[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1859350	1.00[CEU][hapmap];0.82[EUR][1000 genomes]
rs1859351	1.00[CEU][hapmap];1.00[JPT][hapmap];0.83[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs1899691	1.00[CEU][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.92[AFR][1000 genomes];0.91[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1899692	0.82[CEU][hapmap];1.00[JPT][hapmap];0.87[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs45489900	0.93[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs59557479	0.84[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs59563343	0.93[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs62473063	0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62473065	0.86[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62473067	0.92[AFR][1000 genomes];0.91[AMR][1000 genomes];0.96[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs62473069	0.92[AFR][1000 genomes];0.91[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62476010	0.87[ASN][1000 genomes]
rs62476011	0.83[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs6944990	1.00[JPT][hapmap];0.87[ASN][1000 genomes]
rs6945851	1.00[CEU][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.92[AFR][1000 genomes];0.91[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6950106	0.92[AFR][1000 genomes];0.91[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6963328	1.00[CEU][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.92[AFR][1000 genomes];0.86[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6963586	0.92[AFR][1000 genomes];0.91[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6967614	0.92[AFR][1000 genomes];0.91[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6967924	0.92[AFR][1000 genomes];0.91[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs873376	1.00[CEU][hapmap];1.00[JPT][hapmap];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs873377	1.00[CEU][hapmap];1.00[JPT][hapmap];0.88[YRI][hapmap];0.86[AFR][1000 genomes];0.91[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs873378	1.00[CEU][hapmap];1.00[JPT][hapmap];0.93[YRI][hapmap];0.86[AFR][1000 genomes];0.91[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs886497	1.00[CEU][hapmap];1.00[JPT][hapmap];0.84[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9656292	1.00[CEU][hapmap];1.00[JPT][hapmap];0.80[AMR][1000 genomes];0.98[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	nsv5931	chr7:121944137-121988594	Flanking Bivalent TSS/Enh Enhancers Bivalent/Poised TSS Bivalent Enhancer Active TSS Weak transcription Flanking Active TSS Strong transcription ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
2	nsv1017029	chr7:121958574-122338623	Weak transcription Enhancers Active TSS Strong transcription Flanking Active TSS ZNF genes & repeats Bivalent Enhancer Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:21 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr7:121957400-121977600	Weak transcription	Gastric	stomach
2	chr7:121957400-121990800	Weak transcription	Pancreas	Pancrea
3	chr7:121957400-122051200	Weak transcription	Placenta Amnion	Placenta Amnion
4	chr7:121958800-121994400	Weak transcription	Lung	lung
5	chr7:121961200-121980400	Weak transcription	Left Ventricle	heart
6	chr7:121962600-121993000	Weak transcription	Ovary	ovary
7	chr7:121963000-121968800	Weak transcription	H9 Cell Line	embryonic stem cell
8	chr7:121965400-121968800	Enhancers	HUES64 Cell Line	embryonic stem cell
9	chr7:121965400-121969800	Enhancers	HUES48 Cell Line	embryonic stem cell
10	chr7:121967400-121969000	Enhancers	iPS-15b Cell Line	embryonic stem cell
11	chr7:121967400-121971000	Enhancers	ES-UCSF4 Cell Line	embryonic stem cell
12	chr7:121968000-121968800	Enhancers	H9 Derived Neuron Cultured Cells	ES cell derived
13	chr7:121968000-121971000	Enhancers	HUES6 Cell Line	embryonic stem cell
14	chr7:121968200-121969200	Flanking Active TSS	iPS-20b Cell Line	embryonic stem cell
15	chr7:121968200-121969400	Enhancers	ES-WA7 Cell Line	embryonic stem cell
16	chr7:121968200-121969800	Bivalent Enhancer	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
17	chr7:121968200-121970800	Enhancers	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
18	chr7:121968400-121968600	Flanking Active TSS	H1 Cell Line	embryonic stem cell
19	chr7:121968400-121969200	Enhancers	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
20	chr7:121968400-121969400	Flanking Active TSS	iPS-18 Cell Line	embryonic stem cell
21	chr7:121968400-121971000	Enhancers	ES-I3 Cell Line	embryonic stem cell

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