Variant report

Variant	rs17132769
Chromosome Location	chr7:2920067-2920068
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-AMZ1-4	chr7:2920040-2920279	NONHSAT118828

Extended variants
information (count: 32 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:18)

rs_ID	r²[population]
rs10253577	0.92[EUR][1000 genomes]
rs1476633	1.00[JPT][hapmap]
rs17132764	0.83[AMR][1000 genomes];0.88[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17132772	1.00[ASN][1000 genomes]
rs17196783	1.00[CHD][hapmap];1.00[JPT][hapmap]
rs1859559	0.89[EUR][1000 genomes]
rs1878804	1.00[JPT][hapmap]
rs56152914	1.00[ASN][1000 genomes]
rs6943614	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6945582	1.00[CHD][hapmap]
rs6950986	0.81[EUR][1000 genomes]
rs6957938	0.83[AMR][1000 genomes];0.89[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6976564	1.00[ASN][1000 genomes]
rs6976710	1.00[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs6979935	0.81[AMR][1000 genomes];0.83[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6979963	0.87[CEU][hapmap];1.00[JPT][hapmap];0.81[AMR][1000 genomes];0.81[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73035237	0.83[AMR][1000 genomes];0.88[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73035241	0.83[AMR][1000 genomes];0.88[EUR][1000 genomes];1.00[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:14 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1015700	chr7:2753965-2945848	Flanking Active TSS Strong transcription Active TSS Enhancers Genic enhancers Weak transcription Bivalent Enhancer Transcr. at gene 5' and 3' Bivalent/Poised TSS ZNF genes & repeats Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	30 gene(s)	inside rSNPs	diseases
2	nsv1022612	chr7:2789555-3019200	Enhancers ZNF genes & repeats Genic enhancers Weak transcription Flanking Active TSS Active TSS Strong transcription Bivalent/Poised TSS Bivalent Enhancer Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	28 gene(s)	inside rSNPs	diseases
3	nsv887313	chr7:2875420-2927120	Weak transcription ZNF genes & repeats Flanking Active TSS Active TSS Enhancers Strong transcription Genic enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	22 gene(s)	inside rSNPs	diseases
4	nsv887314	chr7:2875420-2944187	Active TSS Weak transcription Flanking Active TSS Enhancers Genic enhancers Strong transcription Flanking Bivalent TSS/Enh Bivalent Enhancer Transcr. at gene 5' and 3' Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	22 gene(s)	inside rSNPs	diseases
5	nsv887315	chr7:2895627-2935424	Enhancers Flanking Active TSS Bivalent Enhancer Weak transcription Active TSS Flanking Bivalent TSS/Enh Strong transcription ZNF genes & repeats Bivalent/Poised TSS Genic enhancers	Chromatin interactive region lncRNA	17 gene(s)	inside rSNPs	diseases
6	nsv1022938	chr7:2899514-3131881	Enhancers Weak transcription Active TSS Strong transcription ZNF genes & repeats Bivalent Enhancer Flanking Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	23 gene(s)	inside rSNPs	diseases
7	nsv526132	chr7:2904928-2968361	Bivalent/Poised TSS Flanking Active TSS Enhancers Weak transcription Strong transcription Bivalent Enhancer Genic enhancers Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	11 gene(s)	inside rSNPs	diseases
8	nsv887316	chr7:2904928-2983520	Strong transcription Enhancers Weak transcription Bivalent Enhancer Genic enhancers Flanking Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Active TSS Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	12 gene(s)	inside rSNPs	diseases
9	nsv887317	chr7:2911972-2944187	Enhancers Flanking Active TSS Bivalent Enhancer Weak transcription Strong transcription Flanking Bivalent TSS/Enh ZNF genes & repeats Active TSS Genic enhancers Bivalent/Poised TSS	Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases
10	nsv971481	chr7:2913356-2925013	Weak transcription Enhancers Bivalent Enhancer Bivalent/Poised TSS ZNF genes & repeats Flanking Active TSS Flanking Bivalent TSS/Enh Genic enhancers Active TSS	Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases
11	esv3353717	chr7:2917626-2921024	Flanking Bivalent TSS/Enh Enhancers Weak transcription ZNF genes & repeats Bivalent Enhancer Flanking Active TSS Active TSS	Chromatin interactive region lncRNA	n/a	inside rSNPs	diseases
12	esv3391477	chr7:2917826-2921024	ZNF genes & repeats Enhancers Weak transcription Bivalent Enhancer Flanking Active TSS Flanking Bivalent TSS/Enh Active TSS	lncRNA	n/a	inside rSNPs	diseases
13	nsv464259	chr7:2920067-2937450	Enhancers Flanking Active TSS Weak transcription Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS	Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
14	nsv605873	chr7:2920067-3204177	Bivalent Enhancer Enhancers Genic enhancers Weak transcription Transcr. at gene 5' and 3' Active TSS Flanking Active TSS Strong transcription ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	13 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:37 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr7:2903600-2921600	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
2	chr7:2913200-2920800	Weak transcription	Right Atrium	heart
3	chr7:2916400-2920400	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
4	chr7:2916400-2921600	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
5	chr7:2916600-2920200	Weak transcription	HMEC	breast
6	chr7:2917600-2920200	Enhancers	Fetal Thymus	thymus
7	chr7:2917800-2920400	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Female	--
8	chr7:2918000-2920200	Enhancers	Primary T helper naive cells from peripheral blood	blood
9	chr7:2918000-2923400	Enhancers	Primary hematopoietic stem cells short term culture	blood
10	chr7:2918600-2920600	Enhancers	ES-I3 Cell Line	embryonic stem cell
11	chr7:2918800-2920800	Enhancers	H1 Derived Mesenchymal Stem Cells	ES cell derived
12	chr7:2918800-2921000	Enhancers	HUES6 Cell Line	embryonic stem cell
13	chr7:2918800-2923400	Enhancers	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
14	chr7:2919000-2921000	Enhancers	iPS DF 6.9 Cell Line	embryonic stem cell
15	chr7:2919200-2921600	Weak transcription	Primary hematopoietic stem cells	blood
16	chr7:2919200-2922400	Enhancers	Cortex derived primary cultured neurospheres	brain
17	chr7:2919400-2921200	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
18	chr7:2919600-2920200	Enhancers	Fetal Muscle Leg	muscle
19	chr7:2919600-2920600	Enhancers	iPS-20b Cell Line	embryonic stem cell
20	chr7:2919600-2920800	Enhancers	Fetal Lung	lung
21	chr7:2919600-2921000	Enhancers	ES-UCSF4 Cell Line	embryonic stem cell
22	chr7:2919600-2921000	Enhancers	Breast Myoepithelial Primary Cells	Breast
23	chr7:2919600-2921200	Enhancers	Ganglion Eminence derived primary cultured neurospheres	brain
24	chr7:2919600-2923600	Enhancers	H1 Cell Line	embryonic stem cell
25	chr7:2919600-2924000	Enhancers	iPS DF 19.11 Cell Line	embryonic stem cell
26	chr7:2919800-2920600	Enhancers	H9 Derived Neuron Cultured Cells	ES cell derived
27	chr7:2919800-2920800	Enhancers	Ovary	ovary
28	chr7:2919800-2922000	Enhancers	iPS-15b Cell Line	embryonic stem cell
29	chr7:2919800-2923600	Weak transcription	Fetal Kidney	kidney
30	chr7:2919800-2926400	Weak transcription	Fetal Brain Male	brain
31	chr7:2920000-2920800	Weak transcription	H9 Cell Line	embryonic stem cell
32	chr7:2920000-2920800	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
33	chr7:2920000-2921000	Enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin
34	chr7:2920000-2921000	Bivalent Enhancer	Fetal Muscle Trunk	muscle
35	chr7:2920000-2921200	Enhancers	HUES48 Cell Line	embryonic stem cell
36	chr7:2920000-2921600	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
37	chr7:2920000-2921600	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--

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