Variant report

Variant	rs59540071
Chromosome Location	chr22:32784280-32784281
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	22:31829733-31836635..22:32764253-32784733	K562	blood:
2	22:31936958-31958600..22:32764253-32784733	K562	blood:
3	22:32529813-32538538..22:32764253-32784733	H1-hESC	embryonic stem cell:	embryo
4	chr22:32777217..32780034-chr22:32781911..32784501,3	K562	blood:
5	22:32513817-32522138..22:32764253-32784733	H1-hESC	embryonic stem cell:	embryo
6	22:32360288-32405313..22:32764253-32784733	K562	blood:

Variant related genes	Relation type
ENSG00000234479	Chromatin interaction
ENSG00000241954	Chromatin interaction
ENSG00000232707	Chromatin interaction
ENSG00000239674	Chromatin interaction
ENSG00000184708	Chromatin interaction
ENSG00000205853	Chromatin interaction
ENSG00000214093	Chromatin interaction
ENSG00000240647	Chromatin interaction
ENSG00000230866	Chromatin interaction

Extended variants
information (count: 90 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:85)

rs_ID	r²[population]
rs13110	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs16990340	1.00[AMR][1000 genomes]
rs16990363	1.00[AMR][1000 genomes]
rs35003092	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs55726161	0.84[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs56005103	0.90[AFR][1000 genomes]
rs56088001	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs56164445	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs56241612	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs56257111	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs56273567	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs56300131	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs56304230	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs56393759	1.00[AMR][1000 genomes]
rs56835150	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs56870764	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs56946080	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs57040236	0.81[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs57313377	1.00[AFR][1000 genomes]
rs57467712	0.84[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs5749414	0.85[AFR][1000 genomes]
rs57526188	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs57670657	0.84[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs58329990	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs58406751	0.90[AFR][1000 genomes]
rs58747874	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs58917959	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs59272508	0.88[AFR][1000 genomes]
rs59540535	0.84[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs59570290	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs59814970	0.81[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs5998441	1.00[AMR][1000 genomes]
rs60284718	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs60614590	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs61036457	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs61060987	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs61702109	1.00[AMR][1000 genomes]
rs7284713	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs7284743	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs7285750	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs7288743	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs7289526	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs7289656	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs7290295	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs7293064	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73881645	1.00[AMR][1000 genomes]
rs73881659	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73881660	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73881661	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73881662	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73881663	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73881664	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73881665	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73881666	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73881668	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73881669	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73881670	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73881671	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73881673	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73881674	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73881675	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73881676	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73881677	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73881678	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73881679	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73881680	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73881682	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73881683	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73881684	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73881685	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73881686	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73881688	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73881689	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73881690	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73881691	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73881694	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73881695	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73881696	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73881697	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73881701	0.87[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73881702	0.87[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs8139487	0.84[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs8139992	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs8141096	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs8141141	0.84[AFR][1000 genomes];1.00[AMR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:5 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	esv2422247	chr22:32486448-32788258	Strong transcription Flanking Active TSS Bivalent Enhancer Enhancers Flanking Bivalent TSS/Enh Weak transcription Bivalent/Poised TSS Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	44 gene(s)	inside rSNPs	diseases
2	nsv459874	chr22:32574274-32866934	Enhancers Weak transcription Flanking Active TSS Bivalent/Poised TSS Genic enhancers Strong transcription Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	40 gene(s)	inside rSNPs	diseases
3	nsv588895	chr22:32574274-32866934	Strong transcription Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent Enhancer Enhancers Flanking Active TSS Weak transcription Active TSS Genic enhancers Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	40 gene(s)	inside rSNPs	diseases
4	nsv1064737	chr22:32603912-32829725	Weak transcription Strong transcription Flanking Active TSS Enhancers Active TSS ZNF genes & repeats Genic enhancers Bivalent Enhancer Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	38 gene(s)	inside rSNPs	diseases
5	nsv1066118	chr22:32779078-32815334	Weak transcription Active TSS Strong transcription Flanking Active TSS Genic enhancers Enhancers Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	21 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:126 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr22:32762800-32788200	Weak transcription	Psoas Muscle	Psoas
2	chr22:32777200-32793800	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
3	chr22:32780000-32790400	Weak transcription	Fetal Brain Male	brain
4	chr22:32780800-32789000	Weak transcription	Pancreatic Islets	Pancreatic Islet
5	chr22:32780800-32806400	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
6	chr22:32780800-32806400	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
7	chr22:32781200-32785200	Strong transcription	H9 Cell Line	embryonic stem cell
8	chr22:32781200-32787000	Strong transcription	Primary T cells from cord blood	blood
9	chr22:32781200-32793600	Strong transcription	Fetal Kidney	kidney
10	chr22:32781200-32798200	Strong transcription	Thymus	Thymus
11	chr22:32781200-32799200	Strong transcription	Duodenum Smooth Muscle	Duodenum
12	chr22:32781200-32801200	Strong transcription	Fetal Stomach	stomach
13	chr22:32781200-32802200	Strong transcription	Primary B cells from peripheral blood	blood
14	chr22:32781200-32803200	Strong transcription	Duodenum Mucosa	Duodenum
15	chr22:32781200-32804000	Strong transcription	Primary T helper cells fromperipheralblood	blood
16	chr22:32781200-32804200	Strong transcription	Stomach Smooth Muscle	stomach
17	chr22:32781200-32804600	Strong transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
18	chr22:32781200-32804600	Strong transcription	Primary mononuclear cells fromperipheralblood	Blood
19	chr22:32781200-32804800	Strong transcription	Primary hematopoietic stem cells short term culture	blood
20	chr22:32781200-32805000	Strong transcription	IMR90 fetal lung fibroblasts Cell Line	lung
21	chr22:32781200-32805400	Strong transcription	Fetal Muscle Leg	muscle
22	chr22:32781200-32806600	Strong transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
23	chr22:32781400-32785200	Strong transcription	NHEK	skin
24	chr22:32781400-32785800	Strong transcription	Muscle Satellite Cultured Cells	--
25	chr22:32781400-32786200	Strong transcription	Foreskin Fibroblast Primary Cells skin01	Skin
26	chr22:32781400-32786200	Strong transcription	Brain Cingulate Gyrus	brain
27	chr22:32781400-32786200	Strong transcription	Gastric	stomach
28	chr22:32781400-32786600	Strong transcription	Brain Germinal Matrix	brain
29	chr22:32781400-32786600	Strong transcription	A549	lung
30	chr22:32781400-32787400	Strong transcription	Brain Inferior Temporal Lobe	brain
31	chr22:32781400-32787400	Strong transcription	Brain Dorsolateral Prefrontal Cortex	brain
32	chr22:32781400-32787400	Strong transcription	Sigmoid Colon	Sigmoid Colon
33	chr22:32781400-32793000	Strong transcription	Fetal Intestine Small	intestine
34	chr22:32781400-32798200	Strong transcription	Cortex derived primary cultured neurospheres	brain
35	chr22:32781400-32798200	Strong transcription	Brain Anterior Caudate	brain
36	chr22:32781400-32798200	Strong transcription	NH-A	brain
37	chr22:32781400-32799200	Strong transcription	Lung	lung
38	chr22:32781400-32801200	Strong transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
39	chr22:32781400-32802600	Strong transcription	Primary monocytes fromperipheralblood	blood
40	chr22:32781400-32802600	Strong transcription	GM12878-XiMat	blood
41	chr22:32781400-32802600	Strong transcription	Monocytes-CD14+_RO01746	blood
42	chr22:32781400-32803200	Strong transcription	Adipose Nuclei	Adipose
43	chr22:32781400-32803200	Strong transcription	Rectal Mucosa Donor 29	rectum
44	chr22:32781400-32803600	Strong transcription	Rectal Mucosa Donor 31	rectum
45	chr22:32781400-32803800	Strong transcription	Primary Natural Killer cells fromperipheralblood	blood
46	chr22:32781400-32803800	Strong transcription	Liver	Liver
47	chr22:32781400-32804400	Strong transcription	Primary T helper naive cells fromperipheralblood	blood
48	chr22:32781400-32804600	Strong transcription	Fetal Thymus	thymus
49	chr22:32781400-32804600	Strong transcription	Skeletal Muscle Male	skeletal muscle
50	chr22:32781400-32804600	Strong transcription	Dnd41	blood

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links