Variant report

Variant	rs7252424
Chromosome Location	chr19:38076071-38076072
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-ZNF793-1	chr19:38075985-38076357	ENSG00000267470.1

Extended variants
information (count: 58 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:56)

rs_ID	r²[population]
rs16973919	0.85[YRI][hapmap]
rs2216299	0.81[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs2248576	1.00[AMR][1000 genomes]
rs2385006	0.87[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs241934	1.00[AMR][1000 genomes]
rs241936	1.00[AMR][1000 genomes]
rs241938	1.00[AMR][1000 genomes]
rs241939	1.00[AMR][1000 genomes]
rs241945	1.00[AMR][1000 genomes]
rs241958	1.00[AMR][1000 genomes]
rs241961	1.00[AMR][1000 genomes]
rs2891656	0.81[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs2909087	0.87[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs2909089	1.00[AMR][1000 genomes]
rs2909090	0.87[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs2909091	1.00[AMR][1000 genomes]
rs2909092	0.81[AFR][1000 genomes]
rs2909094	0.81[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs2909095	0.87[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs2909096	0.87[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs2909099	1.00[AMR][1000 genomes]
rs2909101	0.87[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs2909107	0.87[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs2972429	0.87[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs2972431	0.87[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs2972432	0.87[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs2972433	1.00[AMR][1000 genomes]
rs2972435	0.87[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs2972436	1.00[AMR][1000 genomes]
rs2972440	1.00[AMR][1000 genomes]
rs2972441	1.00[AMR][1000 genomes]
rs2972443	1.00[AMR][1000 genomes]
rs2972450	0.87[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs2972451	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs2972460	0.87[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs3095723	0.87[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs3095725	0.87[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs3112436	0.87[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs34301943	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs61744939	0.81[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs6508734	1.00[YRI][hapmap];1.00[AMR][1000 genomes]
rs6508740	0.81[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs7245613	1.00[AMR][1000 genomes]
rs7245750	1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs7249524	1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs7250160	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs7251623	0.84[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs7259281	1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs8107942	1.00[AMR][1000 genomes]
rs8108032	0.82[YRI][hapmap]
rs8112992	1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs856294	0.81[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs856296	0.81[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs856297	0.87[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs856303	0.81[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs978723	0.81[AFR][1000 genomes];1.00[AMR][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	nsv579468	chr19:37977609-38293487	ZNF genes & repeats Strong transcription Enhancers Flanking Active TSS Bivalent/Poised TSS Active TSS Weak transcription Flanking Bivalent TSS/Enh Genic enhancers Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	28 gene(s)	inside rSNPs	diseases
2	nsv949296	chr19:38034722-38763140	Weak transcription Enhancers ZNF genes & repeats Flanking Active TSS Strong transcription Active TSS Genic enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	58 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:103 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr19:38032400-38080800	ZNF genes & repeats	Liver	Liver
2	chr19:38038000-38078400	ZNF genes & repeats	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
3	chr19:38038600-38079600	ZNF genes & repeats	Duodenum Smooth Muscle	Duodenum
4	chr19:38041200-38079600	ZNF genes & repeats	Primary hematopoietic stem cells G-CSF-mobilized Male	--
5	chr19:38045000-38078600	ZNF genes & repeats	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
6	chr19:38046600-38079600	ZNF genes & repeats	Primary T helper cells PMA-I stimulated	--
7	chr19:38047400-38078600	ZNF genes & repeats	Pancreatic Islets	Pancreatic Islet
8	chr19:38049200-38079600	ZNF genes & repeats	Breast Myoepithelial Primary Cells	Breast
9	chr19:38051600-38077600	ZNF genes & repeats	Primary T regulatory cells fromperipheralblood	blood
10	chr19:38051600-38078800	ZNF genes & repeats	Fetal Brain Female	brain
11	chr19:38052200-38078600	ZNF genes & repeats	Primary B cells from cord blood	blood
12	chr19:38053200-38078200	ZNF genes & repeats	Brain Germinal Matrix	brain
13	chr19:38053200-38078600	ZNF genes & repeats	Primary hematopoietic stem cells G-CSF-mobilized Female	--
14	chr19:38053400-38078400	ZNF genes & repeats	Primary T helper cells fromperipheralblood	blood
15	chr19:38059800-38078000	ZNF genes & repeats	Primary hematopoietic stem cells	blood
16	chr19:38065200-38078800	ZNF genes & repeats	Colon Smooth Muscle	Colon
17	chr19:38065800-38078400	ZNF genes & repeats	Primary T cells from cord blood	blood
18	chr19:38065800-38078600	ZNF genes & repeats	Monocytes-CD14+_RO01746	blood
19	chr19:38067000-38077200	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
20	chr19:38068200-38078200	ZNF genes & repeats	Stomach Smooth Muscle	stomach
21	chr19:38068400-38078000	ZNF genes & repeats	Primary T cells fromperipheralblood	blood
22	chr19:38068400-38078200	ZNF genes & repeats	Fetal Muscle Leg	muscle
23	chr19:38068400-38078400	ZNF genes & repeats	Foreskin Melanocyte Primary Cells skin03	Skin
24	chr19:38068400-38078600	ZNF genes & repeats	Ganglion Eminence derived primary cultured neurospheres	brain
25	chr19:38068400-38078800	ZNF genes & repeats	Primary T helper naive cells fromperipheralblood	blood
26	chr19:38068600-38076600	ZNF genes & repeats	Cortex derived primary cultured neurospheres	brain
27	chr19:38068600-38077600	ZNF genes & repeats	Fetal Muscle Trunk	muscle
28	chr19:38068600-38078200	ZNF genes & repeats	Sigmoid Colon	Sigmoid Colon
29	chr19:38068600-38078400	ZNF genes & repeats	Primary Natural Killer cells fromperipheralblood	blood
30	chr19:38068600-38080000	ZNF genes & repeats	Ovary	ovary
31	chr19:38068600-38080800	ZNF genes & repeats	Primary hematopoietic stem cells short term culture	blood
32	chr19:38068800-38078200	ZNF genes & repeats	Rectal Mucosa Donor 29	rectum
33	chr19:38068800-38079800	ZNF genes & repeats	Dnd41	blood
34	chr19:38069200-38079600	ZNF genes & repeats	Duodenum Mucosa	Duodenum
35	chr19:38069600-38077800	ZNF genes & repeats	Primary T killer naive cells fromperipheralblood	blood
36	chr19:38069800-38084600	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
37	chr19:38070200-38076200	Weak transcription	Stomach Mucosa	stomach
38	chr19:38070400-38077800	Strong transcription	Foreskin Fibroblast Primary Cells skin02	Skin
39	chr19:38070400-38079600	ZNF genes & repeats	Fetal Lung	lung
40	chr19:38070600-38079600	ZNF genes & repeats	Primary T helper memory cells from peripheral blood 1	blood
41	chr19:38071000-38076600	ZNF genes & repeats	Primary T cells effector/memory enriched fromperipheralblood	blood
42	chr19:38071000-38078800	ZNF genes & repeats	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
43	chr19:38071200-38078800	ZNF genes & repeats	Fetal Adrenal Gland	Adrenal Gland
44	chr19:38071200-38079600	ZNF genes & repeats	Fetal Kidney	kidney
45	chr19:38071400-38078600	ZNF genes & repeats	Aorta	Aorta
46	chr19:38072400-38077800	Strong transcription	Foreskin Fibroblast Primary Cells skin01	Skin
47	chr19:38072400-38078800	ZNF genes & repeats	Skeletal Muscle Female	skeletal muscle
48	chr19:38072400-38084600	Weak transcription	H9 Cell Line	embryonic stem cell
49	chr19:38072800-38077600	Strong transcription	Placenta	Placenta
50	chr19:38072800-38078600	ZNF genes & repeats	Rectal Mucosa Donor 31	rectum

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