Variant report

Variant	rs55886059
Chromosome Location	chr2:183789488-183789489
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	chr2:183786363..183790600-chr2:183794242..183796759,3	K562	blood:
2	chr2:183787824..183790280-chr2:183794708..183796727,2	K562	blood:

Extended variants
information (count: 58 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:53)

rs_ID	r²[population]
rs11885629	1.00[EUR][1000 genomes]
rs11885833	0.89[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs11888086	1.00[EUR][1000 genomes]
rs11892717	1.00[EUR][1000 genomes]
rs11896088	0.89[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs16823829	1.00[EUR][1000 genomes]
rs16823945	1.00[EUR][1000 genomes]
rs16823948	1.00[EUR][1000 genomes]
rs16823949	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs16823966	1.00[EUR][1000 genomes]
rs4358084	1.00[EUR][1000 genomes]
rs55803212	1.00[EUR][1000 genomes]
rs56179717	0.90[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs56344408	1.00[EUR][1000 genomes]
rs56362542	1.00[EUR][1000 genomes]
rs57047150	1.00[EUR][1000 genomes]
rs58515193	1.00[EUR][1000 genomes]
rs59308931	1.00[EUR][1000 genomes]
rs60558126	0.89[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs60602756	1.00[EUR][1000 genomes]
rs66727515	0.87[AFR][1000 genomes]
rs6733333	1.00[EUR][1000 genomes]
rs6736252	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs6742298	0.99[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs6757286	1.00[EUR][1000 genomes]
rs73037284	1.00[EUR][1000 genomes]
rs73040079	1.00[EUR][1000 genomes]
rs73040083	1.00[EUR][1000 genomes]
rs73040085	1.00[EUR][1000 genomes]
rs73040088	1.00[EUR][1000 genomes]
rs73042107	1.00[EUR][1000 genomes]
rs73042129	1.00[EUR][1000 genomes]
rs73042136	1.00[EUR][1000 genomes]
rs73042149	1.00[EUR][1000 genomes]
rs73042166	1.00[EUR][1000 genomes]
rs73046211	1.00[EUR][1000 genomes]
rs73046213	1.00[EUR][1000 genomes]
rs73046217	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73046218	1.00[EUR][1000 genomes]
rs73046222	1.00[EUR][1000 genomes]
rs73046226	0.90[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73046232	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73046235	0.89[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73046257	1.00[EUR][1000 genomes]
rs73046260	0.83[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73048203	1.00[EUR][1000 genomes]
rs73980523	1.00[EUR][1000 genomes]
rs73980527	1.00[EUR][1000 genomes]
rs7558834	1.00[EUR][1000 genomes]
rs7561870	1.00[EUR][1000 genomes]
rs7584932	0.89[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs7601416	1.00[EUR][1000 genomes]
rs7602182	0.89[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][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	nsv1009882	chr2:183213152-184171519	Weak transcription Strong transcription Flanking Active TSS Enhancers Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Genic enhancers Bivalent/Poised TSS Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	35 gene(s)	inside rSNPs	diseases
2	esv2757842	chr2:183437700-183835084	Strong transcription Flanking Active TSS Weak transcription Enhancers ZNF genes & repeats Active TSS Genic enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	20 gene(s)	inside rSNPs	diseases
3	esv2759104	chr2:183437700-183835084	Weak transcription Strong transcription Genic enhancers Flanking Bivalent TSS/Enh Enhancers Flanking Active TSS ZNF genes & repeats Active TSS Bivalent/Poised TSS Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	20 gene(s)	inside rSNPs	diseases
4	nsv818096	chr2:183701588-183827018	Enhancers Weak transcription Strong transcription Genic enhancers Flanking Active TSS Bivalent Enhancer Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	6 gene(s)	inside rSNPs	diseases
5	esv3693446	chr2:183785598-183833514	Weak transcription Enhancers Strong transcription Genic enhancers ZNF genes & repeats Flanking Active TSS	TF binding region Chromatin interactive region lncRNA miRNA target site	3 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:98 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr2:183757400-183797800	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
2	chr2:183765200-183792800	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
3	chr2:183765600-183805200	Weak transcription	Gastric	stomach
4	chr2:183768600-183811600	Weak transcription	Rectal Smooth Muscle	rectum
5	chr2:183769800-183811800	Weak transcription	Small Intestine	intestine
6	chr2:183772400-183791000	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
7	chr2:183772400-183799200	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
8	chr2:183772400-183811800	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
9	chr2:183773400-183866000	Weak transcription	Colonic Mucosa	Colon
10	chr2:183773400-183877800	Weak transcription	Stomach Mucosa	stomach
11	chr2:183773600-183793000	Weak transcription	Fetal Brain Male	brain
12	chr2:183775600-183833000	Weak transcription	Pancreas	Pancrea
13	chr2:183779000-183792800	Weak transcription	H9 Cell Line	embryonic stem cell
14	chr2:183780000-183792800	Weak transcription	Psoas Muscle	Psoas
15	chr2:183780000-183807000	Weak transcription	Pancreatic Islets	Pancreatic Islet
16	chr2:183780400-183790400	Weak transcription	Duodenum Smooth Muscle	Duodenum
17	chr2:183780400-183792400	Weak transcription	Brain Inferior Temporal Lobe	brain
18	chr2:183780400-183800800	Weak transcription	Colon Smooth Muscle	Colon
19	chr2:183780400-183874800	Weak transcription	Esophagus	oesophagus
20	chr2:183780600-183791000	Weak transcription	ES-I3 Cell Line	embryonic stem cell
21	chr2:183780600-183792800	Weak transcription	Ovary	ovary
22	chr2:183780800-183811200	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
23	chr2:183781000-183798200	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
24	chr2:183781200-183789800	Weak transcription	Brain Hippocampus Middle	brain
25	chr2:183781200-183791000	Weak transcription	NHLF	lung
26	chr2:183781200-183798200	Weak transcription	Placenta Amnion	Placenta Amnion
27	chr2:183781200-183805800	Weak transcription	Fetal Heart	heart
28	chr2:183781400-183790800	Weak transcription	Skeletal Muscle Female	skeletal muscle
29	chr2:183781400-183792200	Weak transcription	Hela-S3	cervix
30	chr2:183781400-183793000	Strong transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
31	chr2:183781800-183790400	Strong transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
32	chr2:183782200-183795400	Strong transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
33	chr2:183782200-183814200	Weak transcription	Skeletal Muscle Male	skeletal muscle
34	chr2:183782400-183794600	Strong transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
35	chr2:183783000-183799600	Strong transcription	Breast Myoepithelial Primary Cells	Breast
36	chr2:183784200-183789800	Weak transcription	HMEC	breast
37	chr2:183784600-183804400	Strong transcription	H9 Derived Neuron Cultured Cells	ES cell derived
38	chr2:183784800-183811400	Strong transcription	Fetal Intestine Large	intestine
39	chr2:183785000-183791400	Strong transcription	Duodenum Mucosa	Duodenum
40	chr2:183785000-183793000	Strong transcription	HUES48 Cell Line	embryonic stem cell
41	chr2:183785800-183803800	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
42	chr2:183785800-183824200	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
43	chr2:183786000-183794800	Strong transcription	HUES6 Cell Line	embryonic stem cell
44	chr2:183786000-183795000	Strong transcription	HUES64 Cell Line	embryonic stem cell
45	chr2:183786000-183803800	Strong transcription	HSMM	muscle
46	chr2:183786000-183804400	Strong transcription	HUVEC	blood vessel
47	chr2:183786200-183793400	Strong transcription	iPS-18 Cell Line	embryonic stem cell
48	chr2:183786200-183798400	Strong transcription	Rectal Mucosa Donor 31	rectum
49	chr2:183786200-183804200	Strong transcription	Muscle Satellite Cultured Cells	--
50	chr2:183786400-183800000	Weak transcription	Fetal Brain Female	brain

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links