Variant report

Variant	rs855625
Chromosome Location	chr19:38613064-38613065
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr19:38611783..38614608-chr19:38870393..38872975,2	K562	blood:

Variant related genes	Relation type
ENSG00000099341	Chromatin interaction

Extended variants
information (count: 69 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:67)

rs_ID	r²[population]
rs10403716	0.82[EUR][1000 genomes]
rs10405667	0.85[EUR][1000 genomes]
rs1568975	0.85[EUR][1000 genomes]
rs1614979	0.86[EUR][1000 genomes]
rs1622409	0.86[EUR][1000 genomes]
rs1625884	0.88[EUR][1000 genomes]
rs1654355	0.85[EUR][1000 genomes]
rs1654357	0.86[EUR][1000 genomes]
rs1654358	0.86[EUR][1000 genomes]
rs1654359	0.86[EUR][1000 genomes]
rs1654365	0.88[EUR][1000 genomes]
rs1654367	0.85[EUR][1000 genomes]
rs1725461	0.84[EUR][1000 genomes]
rs1725473	0.87[EUR][1000 genomes]
rs1725479	0.86[EUR][1000 genomes]
rs1725512	0.81[EUR][1000 genomes]
rs2005054	0.88[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs2082442	0.88[EUR][1000 genomes]
rs2082443	0.88[EUR][1000 genomes]
rs28581256	0.92[EUR][1000 genomes]
rs3760882	0.88[EUR][1000 genomes]
rs3810356	0.88[EUR][1000 genomes]
rs4802233	0.86[EUR][1000 genomes]
rs4802239	0.88[EUR][1000 genomes]
rs4802247	0.92[EUR][1000 genomes]
rs4803786	0.93[EUR][1000 genomes]
rs4803800	0.90[AMR][1000 genomes];0.90[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs4803801	0.88[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs4803802	0.90[AMR][1000 genomes];0.90[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs4803803	0.88[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs4803809	0.88[EUR][1000 genomes]
rs4803810	0.88[EUR][1000 genomes]
rs56166457	0.89[EUR][1000 genomes]
rs56293547	0.90[AMR][1000 genomes];0.80[EUR][1000 genomes]
rs58152231	0.86[EUR][1000 genomes]
rs59185302	0.93[EUR][1000 genomes]
rs59579475	0.89[EUR][1000 genomes]
rs59924887	0.93[EUR][1000 genomes]
rs61388128	0.93[EUR][1000 genomes]
rs705505	0.86[EUR][1000 genomes]
rs71179415	0.87[EUR][1000 genomes]
rs7248428	0.83[EUR][1000 genomes]
rs7250034	0.88[EUR][1000 genomes]
rs729625	0.85[EUR][1000 genomes]
rs729626	0.86[EUR][1000 genomes]
rs735615	0.86[EUR][1000 genomes]
rs754123	0.87[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs8105468	0.93[EUR][1000 genomes]
rs8106266	0.90[AMR][1000 genomes];0.89[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs855619	0.86[EUR][1000 genomes]
rs855621	0.86[EUR][1000 genomes]
rs855623	0.86[EUR][1000 genomes]
rs855624	0.86[EUR][1000 genomes]
rs855627	0.87[AFR][1000 genomes];0.96[AMR][1000 genomes];0.97[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs855630	0.98[AMR][1000 genomes];0.91[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs855631	0.92[AMR][1000 genomes];0.87[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs855633	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs855634	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs855638	0.86[EUR][1000 genomes]
rs855640	0.86[EUR][1000 genomes]
rs855641	0.88[EUR][1000 genomes]
rs860623	0.98[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs863020	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs941039	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs941040	0.86[EUR][1000 genomes]
rs9941456	0.88[EUR][1000 genomes]
rs9941467	0.90[EUR][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	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
2	esv1804371	chr19:38610640-38616928	Weak transcription Strong transcription ZNF genes & repeats Flanking Active TSS Genic enhancers Enhancers	Chromatin interactive region	1 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:120 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr19:38551200-38613800	Weak transcription	Primary T killer memory cells from peripheral blood	blood
2	chr19:38587200-38613600	Strong transcription	Cortex derived primary cultured neurospheres	brain
3	chr19:38587400-38613400	Strong transcription	Duodenum Mucosa	Duodenum
4	chr19:38591800-38642800	Weak transcription	Small Intestine	intestine
5	chr19:38596000-38613800	Strong transcription	Ganglion Eminence derived primary cultured neurospheres	brain
6	chr19:38600600-38652800	Weak transcription	NHDF-Ad	bronchial
7	chr19:38603000-38625400	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
8	chr19:38604000-38613400	Strong transcription	Primary B cells from cord blood	blood
9	chr19:38605800-38625400	Weak transcription	HMEC	breast
10	chr19:38606200-38613800	Strong transcription	Foreskin Fibroblast Primary Cells skin02	Skin
11	chr19:38607200-38613800	Strong transcription	Foreskin Fibroblast Primary Cells skin01	Skin
12	chr19:38607600-38613200	Strong transcription	Rectal Mucosa Donor 29	rectum
13	chr19:38607600-38613400	Strong transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
14	chr19:38607600-38613800	Strong transcription	IMR90 fetal lung fibroblasts Cell Line	lung
15	chr19:38607600-38613800	Strong transcription	Primary mononuclear cells fromperipheralblood	Blood
16	chr19:38607800-38613800	Strong transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
17	chr19:38608400-38613800	Strong transcription	Liver	Liver
18	chr19:38608800-38613600	Strong transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
19	chr19:38608800-38614000	Strong transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
20	chr19:38608800-38614000	ZNF genes & repeats	Fetal Intestine Small	intestine
21	chr19:38609400-38613800	Strong transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
22	chr19:38609600-38613800	Strong transcription	ES-UCSF4 Cell Line	embryonic stem cell
23	chr19:38609800-38613400	Strong transcription	Primary T helper naive cells fromperipheralblood	blood
24	chr19:38610000-38613400	Strong transcription	H1 Cell Line	embryonic stem cell
25	chr19:38610000-38613400	Strong transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
26	chr19:38610000-38613800	Strong transcription	Primary Natural Killer cells fromperipheralblood	blood
27	chr19:38610600-38613200	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
28	chr19:38610600-38613400	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
29	chr19:38610600-38613800	Strong transcription	Ovary	ovary
30	chr19:38610800-38643600	Weak transcription	HepG2	liver
31	chr19:38611000-38652800	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
32	chr19:38611200-38625400	Weak transcription	NHEK	skin
33	chr19:38611600-38613200	Weak transcription	Esophagus	oesophagus
34	chr19:38611600-38613200	Weak transcription	Skeletal Muscle Male	skeletal muscle
35	chr19:38611600-38613800	Strong transcription	Stomach Smooth Muscle	stomach
36	chr19:38611600-38618400	Weak transcription	Brain Anterior Caudate	brain
37	chr19:38611600-38621400	Weak transcription	Placenta Amnion	Placenta Amnion
38	chr19:38611600-38625400	Weak transcription	Fetal Heart	heart
39	chr19:38611600-38626000	Weak transcription	ES-I3 Cell Line	embryonic stem cell
40	chr19:38611600-38634400	Weak transcription	Stomach Mucosa	stomach
41	chr19:38611600-38634800	Weak transcription	iPS-18 Cell Line	embryonic stem cell
42	chr19:38611600-38634800	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
43	chr19:38611600-38641400	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
44	chr19:38611600-38653000	Weak transcription	HUVEC	blood vessel
45	chr19:38611800-38613200	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
46	chr19:38611800-38613200	Weak transcription	Primary T helper naive cells from peripheral blood	blood
47	chr19:38611800-38613200	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
48	chr19:38611800-38613200	Weak transcription	Brain Hippocampus Middle	brain
49	chr19:38611800-38613200	Weak transcription	Placenta	Placenta
50	chr19:38611800-38613200	Weak transcription	Skeletal Muscle Female	skeletal muscle

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