Variant report

Variant	rs7250439
Chromosome Location	chr19:44610504-44610505
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-ZNF235-4	chr19:44609492-44612490	NONHSAT066662
2	lnc-ZNF235-4	chr19:44609616-44612490	ENSG00000186019.10

Extended variants
information (count: 54 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:53)

rs_ID	r²[population]
rs10401758	1.00[CEU][hapmap]
rs10406980	1.00[CEU][hapmap];0.81[JPT][hapmap]
rs10409643	1.00[CEU][hapmap]
rs10409884	0.81[JPT][hapmap]
rs10409954	1.00[CEU][hapmap]
rs10410283	0.81[JPT][hapmap]
rs10410532	1.00[CEU][hapmap]
rs10415196	1.00[CEU][hapmap]
rs10415563	1.00[CEU][hapmap]
rs10415664	0.84[ASN][1000 genomes]
rs10416230	0.81[JPT][hapmap]
rs10416493	1.00[CEU][hapmap]
rs10417178	0.81[JPT][hapmap]
rs10418460	1.00[CEU][hapmap]
rs10420465	0.81[JPT][hapmap]
rs10422609	1.00[CEU][hapmap];0.81[JPT][hapmap]
rs10424371	1.00[CEU][hapmap]
rs1106562	0.81[JPT][hapmap]
rs13346417	0.90[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs16959114	1.00[CEU][hapmap];0.90[JPT][hapmap];0.83[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs16978665	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.88[AMR][1000 genomes];1.00[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs16978738	1.00[GIH][hapmap];1.00[JPT][hapmap];0.91[MEX][hapmap];0.85[ASN][1000 genomes]
rs16978794	0.81[JPT][hapmap]
rs16978836	0.81[JPT][hapmap]
rs16978910	1.00[CEU][hapmap]
rs16978921	1.00[CEU][hapmap]
rs1881748	0.81[JPT][hapmap]
rs2141524	0.81[JPT][hapmap]
rs2178342	0.81[JPT][hapmap]
rs2232803	1.00[CEU][hapmap]
rs28521615	0.86[AMR][1000 genomes];0.95[ASN][1000 genomes]
rs3746322	1.00[JPT][hapmap];0.98[ASN][1000 genomes]
rs3803932	0.81[JPT][hapmap]
rs4803683	0.88[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs4803685	1.00[CEU][hapmap];0.90[JPT][hapmap];0.88[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs4803686	1.00[CEU][hapmap];0.89[JPT][hapmap];0.88[EUR][1000 genomes]
rs4803688	1.00[CEU][hapmap];0.81[JPT][hapmap]
rs6509142	1.00[CHD][hapmap];1.00[JPT][hapmap];0.95[ASN][1000 genomes]
rs6509144	0.88[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs6509147	1.00[CEU][hapmap];0.86[JPT][hapmap]
rs7249992	0.81[JPT][hapmap]
rs7253796	1.00[CEU][hapmap]
rs7254458	0.81[JPT][hapmap]
rs7257833	1.00[CEU][hapmap]
rs7259777	1.00[CHD][hapmap];1.00[JPT][hapmap];0.98[ASN][1000 genomes]
rs7260588	1.00[JPT][hapmap];0.98[ASN][1000 genomes]
rs8106828	0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs8107252	0.81[JPT][hapmap]
rs8108908	0.81[JPT][hapmap]
rs8111388	1.00[CEU][hapmap];0.89[JPT][hapmap];0.83[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs8111562	1.00[JPT][hapmap];0.95[ASN][1000 genomes]
rs922063	1.00[CEU][hapmap];0.81[JPT][hapmap]
rs922064	0.81[JPT][hapmap]

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	nsv833840	chr19:44520620-44715760	Active TSS Weak transcription Flanking Active TSS ZNF genes & repeats Enhancers Strong transcription Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Transcr. at gene 5' and 3' Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	31 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:123 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr19:44599600-44610600	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
2	chr19:44599600-44611000	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
3	chr19:44600400-44610600	Strong transcription	HSMM	muscle
4	chr19:44600400-44616200	ZNF genes & repeats	Liver	Liver
5	chr19:44600800-44610600	Strong transcription	Primary T helper 17 cells PMA-I stimulated	--
6	chr19:44600800-44610600	Strong transcription	Skeletal Muscle Male	skeletal muscle
7	chr19:44600800-44612800	Strong transcription	Foreskin Fibroblast Primary Cells skin02	Skin
8	chr19:44600800-44614000	ZNF genes & repeats	Primary hematopoietic stem cells G-CSF-mobilized Male	--
9	chr19:44600800-44614600	ZNF genes & repeats	Primary hematopoietic stem cells G-CSF-mobilized Female	--
10	chr19:44601000-44610600	Strong transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
11	chr19:44601000-44611600	Strong transcription	Fetal Thymus	thymus
12	chr19:44601400-44611000	Strong transcription	Placenta	Placenta
13	chr19:44604200-44613000	ZNF genes & repeats	Adipose Nuclei	Adipose
14	chr19:44604600-44612800	ZNF genes & repeats	Breast Myoepithelial Primary Cells	Breast
15	chr19:44604800-44612400	Strong transcription	Placenta Amnion	Placenta Amnion
16	chr19:44604800-44616000	ZNF genes & repeats	Duodenum Smooth Muscle	Duodenum
17	chr19:44605000-44610600	Strong transcription	Cortex derived primary cultured neurospheres	brain
18	chr19:44605200-44614600	Strong transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
19	chr19:44605800-44612600	ZNF genes & repeats	Primary T cells from cord blood	blood
20	chr19:44605800-44613000	ZNF genes & repeats	Fetal Lung	lung
21	chr19:44606400-44610600	Weak transcription	HepG2	liver
22	chr19:44606600-44616400	ZNF genes & repeats	Monocytes-CD14+_RO01746	blood
23	chr19:44607000-44612000	ZNF genes & repeats	Primary neutrophils fromperipheralblood	blood
24	chr19:44607000-44612600	ZNF genes & repeats	GM12878-XiMat	blood
25	chr19:44607000-44612800	ZNF genes & repeats	Primary hematopoietic stem cells	blood
26	chr19:44607000-44612800	ZNF genes & repeats	Rectal Mucosa Donor 29	rectum
27	chr19:44607000-44613000	ZNF genes & repeats	IMR90 fetal lung fibroblasts Cell Line	lung
28	chr19:44607200-44610600	Weak transcription	Hela-S3	cervix
29	chr19:44607400-44612800	ZNF genes & repeats	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
30	chr19:44607800-44611800	ZNF genes & repeats	Primary T cells fromperipheralblood	blood
31	chr19:44607800-44613000	ZNF genes & repeats	Primary hematopoietic stem cells short term culture	blood
32	chr19:44608000-44612600	ZNF genes & repeats	Foreskin Melanocyte Primary Cells skin03	Skin
33	chr19:44608000-44612600	ZNF genes & repeats	Fetal Muscle Trunk	muscle
34	chr19:44608000-44612800	ZNF genes & repeats	Duodenum Mucosa	Duodenum
35	chr19:44608000-44613000	ZNF genes & repeats	Brain Germinal Matrix	brain
36	chr19:44608200-44612400	ZNF genes & repeats	Primary T cells effector/memory enriched fromperipheralblood	blood
37	chr19:44608200-44612800	ZNF genes & repeats	Primary T helper cells PMA-I stimulated	--
38	chr19:44608200-44613000	ZNF genes & repeats	Primary T regulatory cells fromperipheralblood	blood
39	chr19:44608200-44613800	ZNF genes & repeats	Primary B cells from cord blood	blood
40	chr19:44608200-44614600	ZNF genes & repeats	H9 Derived Neuron Cultured Cells	ES cell derived
41	chr19:44608200-44615800	ZNF genes & repeats	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
42	chr19:44608400-44612800	ZNF genes & repeats	Primary B cells from peripheral blood	blood
43	chr19:44608400-44612800	ZNF genes & repeats	A549	lung
44	chr19:44608400-44614400	ZNF genes & repeats	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
45	chr19:44608400-44614600	ZNF genes & repeats	HUES64 Cell Line	embryonic stem cell
46	chr19:44608400-44616000	ZNF genes & repeats	Fetal Brain Female	brain
47	chr19:44608600-44610600	Weak transcription	Fetal Heart	heart
48	chr19:44608600-44612200	ZNF genes & repeats	Primary T helper cells fromperipheralblood	blood
49	chr19:44608600-44612600	ZNF genes & repeats	H1 Cell Line	embryonic stem cell
50	chr19:44608600-44613200	ZNF genes & repeats	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived

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