Variant report

Variant	rs73559625
Chromosome Location	chr19:40910470-40910471
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

TF binding
region (count:0)
CpG islands
(count:0)
Chromatin interactive
region (count:29)
LncRNA
region (count:0)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

No data

(count:29 , 50 per page) page: 1

No.	Distal block	Cell Line	Cell type
1	chr19:40909995..40911526-chr19:41108177..41110853,2	K562	blood:
2	chr19:40908782..40911420-chr19:40938326..40940378,2	K562	blood:
3	chr19:40904937..40906540-chr19:40908365..40910929,3	K562	blood:
4	chr19:40900949..40906608-chr19:40907759..40912304,10	K562	blood:
5	chr19:40908161..40911637-chr19:40970374..40973536,7	K562	blood:
6	chr19:40908613..40911116-chr19:40938326..40941382,3	K562	blood:
7	chr19:40907373..40910987-chr19:40948839..40951846,4	K562	blood:
8	chr19:40908718..40910660-chr19:40949363..40952093,3	MCF-7	breast:
9	chr19:40908387..40911091-chr19:40944867..40946978,2	MCF-7	breast:
10	chr19:40902943..40904707-chr19:40908617..40910993,2	MCF-7	breast:
11	chr19:40789702..40793254-chr19:40909786..40911752,3	K562	blood:
12	chr19:40908162..40912725-chr19:40970116..40973536,6	K562	blood:
13	chr19:40909509..40911149-chr19:40940124..40941735,2	MCF-7	breast:
14	chr19:40909481..40912395-chr19:40929611..40933133,4	MCF-7	breast:
15	chr19:40908607..40910683-chr19:40915791..40917984,2	MCF-7	breast:
16	chr19:40907450..40910987-chr19:40927474..40932273,7	K562	blood:
17	chr19:40909454..40911607-chr19:40919634..40923164,3	K562	blood:
18	chr19:40906949..40911838-chr19:40925099..40928868,7	MCF-7	breast:
19	chr19:40907794..40914181-chr19:40946949..40951155,9	K562	blood:
20	chr19:40901324..40904216-chr19:40909488..40911186,3	K562	blood:
21	chr19:40852895..40856586-chr19:40907979..40911025,3	MCF-7	breast:
22	chr19:40908742..40911097-chr19:40920892..40923647,2	MCF-7	breast:
23	chr19:40908895..40911827-chr19:40929658..40933266,7	MCF-7	breast:
24	chr19:40896021..40898040-chr19:40907846..40910579,2	MCF-7	breast:
25	chr19:40909288..40910944-chr19:40971424..40972987,2	MCF-7	breast:
26	chr19:40908687..40911192-chr19:40912571..40916737,4	K562	blood:
27	chr19:40898268..40902759-chr19:40908036..40910900,5	MCF-7	breast:
28	chr19:40909493..40911572-chr19:40948194..40951173,2	MCF-7	breast:
29	chr19:40884158..40887666-chr19:40907881..40910948,4	K562	blood:

No data

Variant related genes	Relation type
ENSG00000268366	Chromatin interaction
ENSG00000160396	Chromatin interaction
ENSG00000160392	Chromatin interaction
ENSG00000105221	Chromatin interaction
ENSG00000105227	Chromatin interaction
ENSG00000105223	Chromatin interaction
ENSG00000090013	Chromatin interaction
ENSG00000197019	Chromatin interaction
ENSG00000167565	Chromatin interaction
ENSG00000160460	Chromatin interaction

Extended variants
information (count: 34 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:27)

rs_ID	r²[population]
rs10408405	0.82[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs10412156	1.00[EUR][1000 genomes]
rs10422945	1.00[EUR][1000 genomes]
rs10424704	1.00[EUR][1000 genomes]
rs11879375	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs11881681	0.95[AFR][1000 genomes];0.89[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs13345497	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs13346024	1.00[EUR][1000 genomes]
rs268659	1.00[EUR][1000 genomes]
rs28407044	1.00[EUR][1000 genomes]
rs28679850	0.95[AFR][1000 genomes];0.89[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs28728269	1.00[EUR][1000 genomes]
rs3730257	1.00[EUR][1000 genomes]
rs4150984	0.89[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs55646097	0.85[AFR][1000 genomes];0.89[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs55860305	1.00[EUR][1000 genomes]
rs55954198	1.00[EUR][1000 genomes]
rs59129285	1.00[EUR][1000 genomes]
rs60115762	1.00[EUR][1000 genomes]
rs61018633	1.00[EUR][1000 genomes]
rs73559626	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73559635	0.92[AFR][1000 genomes];0.89[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73933256	1.00[EUR][1000 genomes]
rs73933258	1.00[EUR][1000 genomes]
rs73933265	1.00[EUR][1000 genomes]
rs73933270	1.00[EUR][1000 genomes]
rs73933276	1.00[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	esv1826663	chr19:40529943-41023601	Enhancers Strong transcription Active TSS Weak transcription Genic enhancers Bivalent/Poised TSS Bivalent Enhancer Transcr. at gene 5' and 3' Flanking Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	101 gene(s)	inside rSNPs	diseases
2	esv1833489	chr19:40722123-40923908	Enhancers Weak transcription Genic enhancers Flanking Active TSS Flanking Bivalent TSS/Enh Strong transcription Active TSS Bivalent Enhancer 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	35 gene(s)	inside rSNPs	diseases
3	nsv833831	chr19:40796740-40960865	Weak transcription Enhancers Flanking Active TSS Active TSS Strong transcription Genic enhancers Bivalent Enhancer Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	74 gene(s)	inside rSNPs	diseases
4	nsv911706	chr19:40842529-40969203	Weak transcription Flanking Active TSS Strong transcription Active TSS Enhancers Genic enhancers Bivalent Enhancer Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	73 gene(s)	inside rSNPs	diseases
5	nsv911707	chr19:40855255-40948202	Enhancers Weak transcription Strong transcription Transcr. at gene 5' and 3' Flanking Active TSS Active TSS Genic enhancers Bivalent Enhancer ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	61 gene(s)	inside rSNPs	diseases
6	nsv911708	chr19:40855255-40982375	Weak transcription Active TSS Genic enhancers Flanking Active TSS Bivalent/Poised TSS Strong transcription Enhancers Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	74 gene(s)	inside rSNPs	diseases
7	esv1830682	chr19:40880127-41270055	Weak transcription Strong transcription Enhancers Genic enhancers Active TSS Flanking Active TSS Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	139 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:81 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr19:40909400-40914000	Weak transcription	Stomach Mucosa	stomach
2	chr19:40909600-40910600	Active TSS	Foreskin Fibroblast Primary Cells skin02	Skin
3	chr19:40909800-40910600	Flanking Active TSS	Foreskin Fibroblast Primary Cells skin01	Skin
4	chr19:40910200-40910600	Enhancers	ES-WA7 Cell Line	embryonic stem cell
5	chr19:40910200-40910600	Enhancers	H9 Derived Neuron Cultured Cells	ES cell derived
6	chr19:40910200-40910600	Enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
7	chr19:40910200-40910600	Enhancers	iPS-15b Cell Line	embryonic stem cell
8	chr19:40910200-40910600	Enhancers	ES-UCSF4 Cell Line	embryonic stem cell
9	chr19:40910200-40910600	Enhancers	Primary B cells from peripheral blood	blood
10	chr19:40910200-40910600	Enhancers	Primary hematopoietic stem cells	blood
11	chr19:40910200-40910600	Enhancers	Primary T helper memory cells from peripheral blood 2	blood
12	chr19:40910200-40910600	Enhancers	Primary Natural Killer cells fromperipheralblood	blood
13	chr19:40910200-40910600	Weak transcription	Primary T killer memory cells from peripheral blood	blood
14	chr19:40910200-40910600	Enhancers	Fetal Intestine Small	intestine
15	chr19:40910200-40910600	Enhancers	Fetal Muscle Leg	muscle
16	chr19:40910200-40910600	Enhancers	Fetal Thymus	thymus
17	chr19:40910200-40910600	Active TSS	Right Ventricle	heart
18	chr19:40910200-40910600	Enhancers	Skeletal Muscle Male	skeletal muscle
19	chr19:40910200-40910600	Enhancers	Skeletal Muscle Female	skeletal muscle
20	chr19:40910200-40910600	Enhancers	NHEK	skin
21	chr19:40910200-40910600	Enhancers	NHLF	lung
22	chr19:40910200-40910800	Weak transcription	iPS-20b Cell Line	embryonic stem cell
23	chr19:40910200-40910800	Enhancers	Primary T helper naive cells from peripheral blood	blood
24	chr19:40910200-40911000	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
25	chr19:40910200-40911000	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Male	--
26	chr19:40910200-40911000	Enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin
27	chr19:40910200-40911200	Enhancers	Primary T helper cells PMA-I stimulated	--
28	chr19:40910200-40911200	Enhancers	Cortex derived primary cultured neurospheres	brain
29	chr19:40910200-40911200	Enhancers	Placenta	Placenta
30	chr19:40910200-40911400	Enhancers	HUES6 Cell Line	embryonic stem cell
31	chr19:40910200-40911400	Enhancers	Primary hematopoietic stem cells short term culture	blood
32	chr19:40910200-40911400	Enhancers	Adipose Nuclei	Adipose
33	chr19:40910200-40911400	Enhancers	Fetal Stomach	stomach
34	chr19:40910200-40911400	Enhancers	Stomach Smooth Muscle	stomach
35	chr19:40910200-40911400	Enhancers	GM12878-XiMat	blood
36	chr19:40910200-40911400	Enhancers	NHDF-Ad	bronchial
37	chr19:40910200-40913600	Weak transcription	Primary B cells from cord blood	blood
38	chr19:40910200-40913600	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
39	chr19:40910200-40913600	Weak transcription	Lung	lung
40	chr19:40910200-40913600	Weak transcription	Monocytes-CD14+_RO01746	blood
41	chr19:40910200-40913800	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
42	chr19:40910200-40913800	Weak transcription	Colonic Mucosa	Colon
43	chr19:40910200-40913800	Weak transcription	Rectal Mucosa Donor 31	rectum
44	chr19:40910200-40913800	Weak transcription	Spleen	Spleen
45	chr19:40910200-40914000	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
46	chr19:40910200-40916800	Weak transcription	Right Atrium	heart
47	chr19:40910200-40917000	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
48	chr19:40910200-40917000	Weak transcription	Esophagus	oesophagus
49	chr19:40910200-40917000	Weak transcription	Psoas Muscle	Psoas
50	chr19:40910200-40919000	Weak transcription	iPS-18 Cell Line	embryonic stem cell

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links