Variant report

Variant	rs855632
Chromosome Location	chr19:38603259-38603260
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr19:38396450..38399349-chr19:38602232..38604723,2	K562	blood:

Variant related genes	Relation type
ENSG00000171804	Chromatin interaction
ENSG00000105738	Chromatin interaction

Extended variants
information (count: 38 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:36)

rs_ID	r²[population]
rs10404957	0.81[AFR][1000 genomes];0.97[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1654363	0.82[ASN][1000 genomes]
rs1654366	0.90[CHB][hapmap];0.83[JPT][hapmap];0.82[ASN][1000 genomes]
rs1654369	0.91[ASN][1000 genomes]
rs1725472	0.90[CHB][hapmap];0.83[JPT][hapmap];0.82[ASN][1000 genomes]
rs1725474	0.82[ASN][1000 genomes]
rs1725489	0.94[JPT][hapmap];0.86[ASN][1000 genomes]
rs1725513	0.82[ASN][1000 genomes]
rs2005055	0.84[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs2099340	0.90[AMR][1000 genomes];0.92[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs2384778	0.91[AMR][1000 genomes];0.94[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs2569412	0.90[AMR][1000 genomes];0.93[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs332843	0.91[AMR][1000 genomes];0.94[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs332844	0.91[AMR][1000 genomes];0.94[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs332848	0.93[AMR][1000 genomes];0.94[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs332849	0.90[AMR][1000 genomes];0.94[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs332850	0.91[AMR][1000 genomes];0.93[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs332851	0.89[AMR][1000 genomes];0.88[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs332855	0.85[AMR][1000 genomes];0.93[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs332856	0.88[CEU][hapmap];0.86[JPT][hapmap];0.88[AMR][1000 genomes];0.92[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs332858	0.88[AMR][1000 genomes];0.93[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs332864	0.92[CEU][hapmap];0.81[CHB][hapmap];1.00[JPT][hapmap];0.88[AMR][1000 genomes];0.95[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs35932728	0.81[AFR][1000 genomes];1.00[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs4802251	0.91[AMR][1000 genomes];0.94[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs4803757	0.82[ASN][1000 genomes]
rs6508765	0.90[AMR][1000 genomes];0.93[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs705507	0.97[AMR][1000 genomes];0.97[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs8100128	0.93[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs8100144	0.90[AMR][1000 genomes];0.93[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs8101826	0.93[AMR][1000 genomes];0.94[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs8109695	0.91[AMR][1000 genomes];0.94[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs8109799	0.93[AMR][1000 genomes];0.93[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs8111180	0.92[CEU][hapmap];0.90[CHB][hapmap];1.00[JPT][hapmap];0.91[AMR][1000 genomes];0.94[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs8112798	0.89[AMR][1000 genomes];0.93[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs855614	0.86[AFR][1000 genomes];0.96[AMR][1000 genomes];0.97[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs9941474	0.89[CEU][hapmap];0.92[CHB][hapmap];1.00[JPT][hapmap];0.91[AMR][1000 genomes];0.94[EUR][1000 genomes];0.94[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	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	esv3403741	chr19:38600512-38604910	Strong transcription ZNF genes & repeats Weak transcription Enhancers Genic enhancers Transcr. at gene 5' and 3'	TF binding region Chromatin interactive region	3 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	chr19:38551200-38613800	Weak transcription	Primary T killer memory cells from peripheral blood	blood
2	chr19:38567600-38605400	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
3	chr19:38573600-38610000	Strong transcription	Fetal Intestine Large	intestine
4	chr19:38581600-38610000	Weak transcription	Psoas Muscle	Psoas
5	chr19:38587000-38605400	Strong transcription	Primary B cells from peripheral blood	blood
6	chr19:38587200-38613600	Strong transcription	Cortex derived primary cultured neurospheres	brain
7	chr19:38587400-38613400	Strong transcription	Duodenum Mucosa	Duodenum
8	chr19:38588600-38604000	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
9	chr19:38588800-38606600	Strong transcription	Liver	Liver
10	chr19:38589200-38606800	Strong transcription	Rectal Mucosa Donor 29	rectum
11	chr19:38590200-38605200	Strong transcription	Primary mononuclear cells fromperipheralblood	Blood
12	chr19:38590200-38605800	Strong transcription	Adipose Nuclei	Adipose
13	chr19:38590200-38606600	Strong transcription	Sigmoid Colon	Sigmoid Colon
14	chr19:38590200-38606600	Strong transcription	Stomach Smooth Muscle	stomach
15	chr19:38590200-38611000	Strong transcription	Duodenum Smooth Muscle	Duodenum
16	chr19:38590400-38606400	Strong transcription	Fetal Brain Female	brain
17	chr19:38590400-38609800	Strong transcription	Breast Myoepithelial Primary Cells	Breast
18	chr19:38590800-38603600	Strong transcription	Fetal Adrenal Gland	Adrenal Gland
19	chr19:38590800-38603800	Strong transcription	Monocytes-CD14+_RO01746	blood
20	chr19:38590800-38606600	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
21	chr19:38590800-38608800	Strong transcription	Fetal Intestine Small	intestine
22	chr19:38591000-38605000	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
23	chr19:38591200-38605400	Strong transcription	Primary hematopoietic stem cells short term culture	blood
24	chr19:38591200-38605400	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
25	chr19:38591200-38605800	Strong transcription	Primary neutrophils fromperipheralblood	blood
26	chr19:38591400-38603600	Strong transcription	Primary monocytes fromperipheralblood	blood
27	chr19:38591400-38605400	Weak transcription	Primary T helper naive cells from peripheral blood	blood
28	chr19:38591800-38609000	Strong transcription	Fetal Stomach	stomach
29	chr19:38591800-38642800	Weak transcription	Small Intestine	intestine
30	chr19:38594400-38606800	Strong transcription	Rectal Mucosa Donor 31	rectum
31	chr19:38594600-38606800	Strong transcription	GM12878-XiMat	blood
32	chr19:38595400-38603600	Strong transcription	Primary T helper cells fromperipheralblood	blood
33	chr19:38595800-38605000	Strong transcription	Fetal Muscle Trunk	muscle
34	chr19:38595800-38605800	Strong transcription	HUES48 Cell Line	embryonic stem cell
35	chr19:38595800-38606200	Strong transcription	Ovary	ovary
36	chr19:38595800-38606600	Strong transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
37	chr19:38596000-38604200	Strong transcription	HUES64 Cell Line	embryonic stem cell
38	chr19:38596000-38610000	Strong transcription	Fetal Muscle Leg	muscle
39	chr19:38596000-38613800	Strong transcription	Ganglion Eminence derived primary cultured neurospheres	brain
40	chr19:38596200-38603400	Strong transcription	Placenta	Placenta
41	chr19:38596200-38605800	Strong transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
42	chr19:38596200-38606600	Strong transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
43	chr19:38597000-38603400	Strong transcription	Primary Natural Killer cells fromperipheralblood	blood
44	chr19:38597000-38603600	Strong transcription	Primary T cells fromperipheralblood	blood
45	chr19:38597000-38606400	Strong transcription	Colonic Mucosa	Colon
46	chr19:38597200-38604600	Strong transcription	Skeletal Muscle Female	skeletal muscle
47	chr19:38597800-38603400	Strong transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
48	chr19:38597800-38604200	Strong transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
49	chr19:38597800-38606600	Strong transcription	Muscle Satellite Cultured Cells	--
50	chr19:38597800-38610200	Weak transcription	HUVEC	blood vessel

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links