Variant report

Variant	rs60038395
Chromosome Location	chr19:35952895-35952896
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr19:35943873..35946531-chr19:35952558..35955440,2	MCF-7	breast:
2	chr19:35952414..35955160-chr19:35958571..35960492,2	K562	blood:
3	chr19:35924952..35927420-chr19:35951725..35953807,2	K562	blood:
4	chr19:35950578..35953125-chr19:35957204..35959006,2	MCF-7	breast:
5	chr19:35921074..35922900-chr19:35950996..35953556,2	K562	blood:

Variant related genes	Relation type
ENSG00000232680	Chromatin interaction

Extended variants
information (count: 14 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:7)

rs_ID	r²[population]
rs10408094	0.91[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs10417830	0.93[EUR][1000 genomes]
rs10419824	0.89[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs28439691	0.89[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs7245569	0.92[EUR][1000 genomes]
rs7248666	0.92[EUR][1000 genomes]
rs9916947	0.85[AMR][1000 genomes];0.90[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:7 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv432045	chr19:35556260-36520760	Flanking Active TSS Enhancers Active TSS Weak transcription Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer Strong transcription Genic enhancers Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	191 gene(s)	inside rSNPs	diseases
2	nsv1060100	chr19:35658505-36170042	Weak transcription Bivalent Enhancer Enhancers Flanking Active TSS Flanking Bivalent TSS/Enh Strong transcription Genic enhancers Active TSS Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	107 gene(s)	inside rSNPs	diseases
3	nsv543993	chr19:35658505-36170042	Enhancers Strong transcription Active TSS Weak transcription Bivalent Enhancer Flanking Active TSS Genic enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	107 gene(s)	inside rSNPs	diseases
4	nsv833810	chr19:35782588-35971959	Weak transcription Enhancers Bivalent Enhancer Flanking Active TSS Strong transcription ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS Genic enhancers Active TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA	29 gene(s)	inside rSNPs	diseases
5	nsv833811	chr19:35850257-36029535	Enhancers Flanking Active TSS Weak transcription Genic enhancers ZNF genes & repeats Bivalent Enhancer Flanking Bivalent TSS/Enh Active TSS Strong transcription Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	24 gene(s)	inside rSNPs	diseases
6	nsv1057692	chr19:35949892-35984103	Enhancers Flanking Active TSS Weak transcription Bivalent Enhancer Bivalent/Poised TSS Active TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region	9 gene(s)	inside rSNPs	diseases
7	nsv543994	chr19:35949892-35984103	Enhancers Weak transcription Flanking Active TSS Active TSS Bivalent Enhancer ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region	9 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:58 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr19:35941600-35970200	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
2	chr19:35946600-35955200	Enhancers	Primary B cells from peripheral blood	blood
3	chr19:35948200-35955000	Enhancers	Primary hematopoietic stem cells	blood
4	chr19:35948200-35955000	Enhancers	Fetal Thymus	thymus
5	chr19:35948200-35955600	Enhancers	Primary hematopoietic stem cells short term culture	blood
6	chr19:35948600-35953000	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Female	--
7	chr19:35948600-35955000	Enhancers	Fetal Adrenal Gland	Adrenal Gland
8	chr19:35948800-35954600	Enhancers	Placenta	Placenta
9	chr19:35948800-35955000	Enhancers	Primary monocytes fromperipheralblood	blood
10	chr19:35949600-35953800	Enhancers	Spleen	Spleen
11	chr19:35949600-35955800	Enhancers	Primary Natural Killer cells fromperipheralblood	blood
12	chr19:35949800-35955200	Enhancers	Fetal Muscle Trunk	muscle
13	chr19:35950000-35953200	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Male	--
14	chr19:35950200-35953200	Weak transcription	Pancreatic Islets	Pancreatic Islet
15	chr19:35950400-35953000	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
16	chr19:35950400-35953200	Weak transcription	Rectal Mucosa Donor 31	rectum
17	chr19:35950400-35955000	Enhancers	Primary T helper cells PMA-I stimulated	--
18	chr19:35950600-35953200	Enhancers	GM12878-XiMat	blood
19	chr19:35950600-35953400	Weak transcription	Brain Anterior Caudate	brain
20	chr19:35950600-35953600	Enhancers	Duodenum Mucosa	Duodenum
21	chr19:35950800-35953200	Enhancers	Primary B cells from cord blood	blood
22	chr19:35950800-35953200	Weak transcription	Brain Substantia Nigra	brain
23	chr19:35951000-35953200	Enhancers	Primary T cells fromperipheralblood	blood
24	chr19:35951000-35953200	Weak transcription	Skeletal Muscle Male	skeletal muscle
25	chr19:35951000-35955000	Enhancers	Adipose Nuclei	Adipose
26	chr19:35951200-35953200	Weak transcription	Right Atrium	heart
27	chr19:35951200-35958000	Weak transcription	Lung	lung
28	chr19:35951600-35953200	Enhancers	Primary T helper memory cells from peripheral blood 2	blood
29	chr19:35951800-35953200	Enhancers	Primary T killer naive cells fromperipheralblood	blood
30	chr19:35951800-35953200	Enhancers	Primary T killer memory cells from peripheral blood	blood
31	chr19:35951800-35953400	Weak transcription	A549	lung
32	chr19:35951800-35954800	Enhancers	Primary T helper naive cells fromperipheralblood	blood
33	chr19:35951800-35955400	Enhancers	Primary T helper memory cells from peripheral blood 1	blood
34	chr19:35952000-35953000	Weak transcription	Dnd41	blood
35	chr19:35952000-35953200	Enhancers	Primary T regulatory cells fromperipheralblood	blood
36	chr19:35952000-35953200	Weak transcription	HepG2	liver
37	chr19:35952000-35953800	Weak transcription	Colon Smooth Muscle	Colon
38	chr19:35952000-35955400	Enhancers	Primary T helper cells fromperipheralblood	blood
39	chr19:35952000-35957200	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
40	chr19:35952200-35953000	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
41	chr19:35952200-35953200	Weak transcription	Right Ventricle	heart
42	chr19:35952200-35953200	Weak transcription	Skeletal Muscle Female	skeletal muscle
43	chr19:35952200-35953200	Enhancers	Monocytes-CD14+_RO01746	blood
44	chr19:35952200-35953600	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
45	chr19:35952200-35954800	Enhancers	Primary T helper 17 cells PMA-I stimulated	--
46	chr19:35952400-35953200	Enhancers	Primary T helper naive cells from peripheral blood	blood
47	chr19:35952400-35953400	Weak transcription	Fetal Stomach	stomach
48	chr19:35952400-35953400	Weak transcription	Sigmoid Colon	Sigmoid Colon
49	chr19:35952400-35953400	Weak transcription	Small Intestine	intestine
50	chr19:35952400-35958000	Weak transcription	Liver	Liver

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links