Variant report

Variant	rs16823813
Chromosome Location	chr2:153439698-153439699
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr2:153439083..153441750-chr2:153449195..153451326,2	K562	blood:
2	chr2:153439236..153441147-chr2:153442384..153444667,2	MCF-7	breast:
3	chr2:153431363..153434318-chr2:153436481..153440010,3	K562	blood:
4	chr2:153438032..153440422-chr2:153459434..153461686,2	MCF-7	breast:

Extended variants
information (count: 23 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:20)

rs_ID	r²[population]
rs10497107	0.95[EUR][1000 genomes]
rs10497108	0.95[EUR][1000 genomes]
rs10497111	0.95[EUR][1000 genomes]
rs11892222	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs1370500	0.94[EUR][1000 genomes]
rs1370501	0.91[EUR][1000 genomes]
rs16823807	0.95[EUR][1000 genomes]
rs16823809	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs16831392	0.95[EUR][1000 genomes]
rs16831399	0.95[EUR][1000 genomes]
rs16831410	0.92[EUR][1000 genomes]
rs16831413	0.94[AFR][1000 genomes];0.98[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs56220401	0.92[AFR][1000 genomes];0.98[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs57173254	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs58383962	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs59103281	0.88[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs60447103	0.82[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs61698095	0.92[EUR][1000 genomes]
rs7599894	0.92[EUR][1000 genomes]
rs7600114	0.92[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:3 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	esv3693436	chr2:153219836-153479857	Weak transcription Active TSS Enhancers Flanking Active TSS Strong transcription Genic enhancers Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases
2	nsv1013777	chr2:153273637-153538546	Weak transcription Strong transcription Genic enhancers Enhancers Flanking Active TSS ZNF genes & repeats Active TSS Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	9 gene(s)	inside rSNPs	diseases
3	nsv834420	chr2:153339646-153535460	Weak transcription Flanking Active TSS Strong transcription Enhancers Genic enhancers ZNF genes & repeats Bivalent Enhancer Active TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	9 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:84 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr2:153400000-153468200	Weak transcription	Sigmoid Colon	Sigmoid Colon
2	chr2:153400600-153442000	Weak transcription	Rectal Smooth Muscle	rectum
3	chr2:153403200-153448000	Weak transcription	Lung	lung
4	chr2:153404200-153442400	Weak transcription	Fetal Muscle Trunk	muscle
5	chr2:153405200-153441800	Weak transcription	Duodenum Smooth Muscle	Duodenum
6	chr2:153416400-153454200	Weak transcription	HUES48 Cell Line	embryonic stem cell
7	chr2:153416400-153465200	Weak transcription	Left Ventricle	heart
8	chr2:153417800-153442000	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
9	chr2:153418800-153444600	Weak transcription	Fetal Brain Male	brain
10	chr2:153420400-153443400	Weak transcription	Fetal Intestine Small	intestine
11	chr2:153423800-153471200	Weak transcription	Fetal Kidney	kidney
12	chr2:153428000-153442000	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
13	chr2:153428000-153468200	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
14	chr2:153428200-153440000	Weak transcription	Fetal Heart	heart
15	chr2:153428200-153456000	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
16	chr2:153429200-153456200	Weak transcription	Spleen	Spleen
17	chr2:153429600-153442200	Strong transcription	HepG2	liver
18	chr2:153430000-153440200	Weak transcription	NH-A	brain
19	chr2:153430000-153449400	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
20	chr2:153430200-153440800	Weak transcription	NHLF	lung
21	chr2:153430400-153441200	Strong transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
22	chr2:153434200-153442600	Weak transcription	ES-I3 Cell Line	embryonic stem cell
23	chr2:153434200-153473600	Weak transcription	Brain Germinal Matrix	brain
24	chr2:153434400-153440000	Weak transcription	Psoas Muscle	Psoas
25	chr2:153434400-153442000	Weak transcription	Skeletal Muscle Female	skeletal muscle
26	chr2:153434400-153454400	Weak transcription	H1 Cell Line	embryonic stem cell
27	chr2:153434600-153442000	Weak transcription	Skeletal Muscle Male	skeletal muscle
28	chr2:153434600-153442400	Weak transcription	Small Intestine	intestine
29	chr2:153434800-153441400	Weak transcription	Ovary	ovary
30	chr2:153435200-153441600	Enhancers	Brain Substantia Nigra	brain
31	chr2:153435400-153473200	Weak transcription	Right Ventricle	heart
32	chr2:153435600-153455200	Weak transcription	Hela-S3	cervix
33	chr2:153436600-153444800	Enhancers	Muscle Satellite Cultured Cells	--
34	chr2:153437400-153441200	Strong transcription	H9 Derived Neuron Cultured Cells	ES cell derived
35	chr2:153437400-153441200	Strong transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
36	chr2:153437800-153439800	Strong transcription	HUES64 Cell Line	embryonic stem cell
37	chr2:153437800-153439800	Strong transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
38	chr2:153437800-153442000	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
39	chr2:153438000-153440800	Strong transcription	NHEK	skin
40	chr2:153438200-153441800	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
41	chr2:153438200-153456000	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
42	chr2:153438400-153440200	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
43	chr2:153438400-153440200	Weak transcription	HSMM	muscle
44	chr2:153438400-153440400	Strong transcription	HMEC	breast
45	chr2:153438400-153441000	Weak transcription	NHDF-Ad	bronchial
46	chr2:153438400-153442000	Weak transcription	HSMMtube	muscle
47	chr2:153438400-153442600	Weak transcription	Adipose Nuclei	Adipose
48	chr2:153438400-153444200	Weak transcription	iPS-18 Cell Line	embryonic stem cell
49	chr2:153438400-153475400	Weak transcription	Pancreas	Pancrea
50	chr2:153438600-153440000	Weak transcription	Osteobl	bone

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links