Variant report

Variant	rs10898483
Chromosome Location	chr11:86160313-86160314
allele	A/C/G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr11:86158745..86161697-chr11:86162111..86164358,2	MCF-7	breast:
2	chr11:86152679..86155183-chr11:86156191..86160903,4	K562	blood:

Extended variants
information (count: 33 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:30)

rs_ID	r²[population]
rs1056194	0.84[CHD][hapmap]
rs1563682	0.94[ASW][hapmap];0.87[CHD][hapmap];0.96[LWK][hapmap];0.91[MKK][hapmap];0.92[YRI][hapmap];0.87[AFR][1000 genomes]
rs2125362	0.89[CHD][hapmap]
rs2125363	0.86[CHD][hapmap]
rs2446224	0.85[CHB][hapmap];0.86[JPT][hapmap]
rs2446225	0.80[CHB][hapmap]
rs2511082	0.85[CHB][hapmap];0.86[JPT][hapmap]
rs4944575	0.87[CHD][hapmap]
rs4944580	0.87[CHD][hapmap]
rs4944583	0.83[AFR][1000 genomes]
rs583594	0.85[CHB][hapmap]
rs584953	0.80[CHB][hapmap]
rs601646	0.80[CHB][hapmap]
rs614995	0.80[CHB][hapmap]
rs631082	0.80[CHB][hapmap]
rs647561	0.80[CHB][hapmap]
rs6592296	0.96[YRI][hapmap];0.87[AFR][1000 genomes]
rs661163	0.80[CHB][hapmap]
rs663208	0.80[CHB][hapmap]
rs664613	0.85[CHB][hapmap]
rs669325	0.80[CHB][hapmap]
rs675775	0.85[CHB][hapmap];0.86[JPT][hapmap]
rs676106	0.80[CHB][hapmap]
rs677643	0.80[CHB][hapmap]
rs679977	0.80[CHB][hapmap]
rs7108055	0.92[YRI][hapmap];0.83[AFR][1000 genomes]
rs7109853	0.83[ASW][hapmap];0.89[CHD][hapmap];0.94[LWK][hapmap];0.99[MKK][hapmap];0.96[YRI][hapmap];0.88[AFR][1000 genomes]
rs7122239	0.83[ASW][hapmap];0.89[CHD][hapmap];0.94[LWK][hapmap];0.99[MKK][hapmap];0.96[YRI][hapmap];0.88[AFR][1000 genomes]
rs7122479	0.94[ASW][hapmap];0.84[CHD][hapmap];0.93[LWK][hapmap];0.82[MKK][hapmap];0.92[YRI][hapmap];0.81[AFR][1000 genomes]
rs7123773	0.94[ASW][hapmap];0.87[CHD][hapmap];1.00[LWK][hapmap];1.00[MKK][hapmap];1.00[YRI][hapmap];0.90[AFR][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	nsv1044081	chr11:86133641-86868560	Bivalent/Poised TSS Weak transcription Active TSS Enhancers Flanking Active TSS Strong transcription ZNF genes & repeats Bivalent Enhancer Genic enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	40 gene(s)	inside rSNPs	diseases
2	nsv541118	chr11:86133641-86868560	Enhancers Weak transcription ZNF genes & repeats Active TSS Flanking Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Strong transcription Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	40 gene(s)	inside rSNPs	diseases
3	nsv898056	chr11:86156848-86304402	Weak transcription Genic enhancers Enhancers Strong transcription Flanking Active TSS Bivalent Enhancer ZNF genes & repeats Active TSS	TF binding region CpG island Chromatin interactive region	7 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs10898483	PRSS23	cis	parietal	SCAN

Chromatin state (count:64 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr11:86136800-86170200	Weak transcription	Fetal Heart	heart
2	chr11:86138600-86167400	Weak transcription	Fetal Lung	lung
3	chr11:86142000-86167400	Weak transcription	Rectal Mucosa Donor 29	rectum
4	chr11:86145400-86167400	Weak transcription	Pancreas	Pancrea
5	chr11:86150200-86167400	Weak transcription	Stomach Mucosa	stomach
6	chr11:86151800-86167400	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
7	chr11:86151800-86167400	Weak transcription	Muscle Satellite Cultured Cells	--
8	chr11:86152400-86164000	Weak transcription	Brain Substantia Nigra	brain
9	chr11:86152400-86172200	Weak transcription	Fetal Brain Male	brain
10	chr11:86153000-86161200	Weak transcription	Colonic Mucosa	Colon
11	chr11:86153200-86187000	Weak transcription	Fetal Kidney	kidney
12	chr11:86154000-86166800	Weak transcription	A549	lung
13	chr11:86154000-86167400	Weak transcription	NH-A	brain
14	chr11:86154000-86169600	Weak transcription	HSMM	muscle
15	chr11:86154000-86170800	Weak transcription	Esophagus	oesophagus
16	chr11:86154200-86160600	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
17	chr11:86154200-86167000	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
18	chr11:86154600-86167400	Weak transcription	Hela-S3	cervix
19	chr11:86154600-86170600	Weak transcription	Brain Cingulate Gyrus	brain
20	chr11:86154800-86171000	Weak transcription	Placenta Amnion	Placenta Amnion
21	chr11:86155000-86167400	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
22	chr11:86156200-86160600	Weak transcription	Brain Angular Gyrus	brain
23	chr11:86156400-86167400	Weak transcription	Rectal Mucosa Donor 31	rectum
24	chr11:86156600-86167400	Weak transcription	Colon Smooth Muscle	Colon
25	chr11:86156800-86169400	Weak transcription	Osteobl	bone
26	chr11:86157000-86167400	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
27	chr11:86157000-86179800	Weak transcription	Fetal Intestine Large	intestine
28	chr11:86157400-86170800	Weak transcription	Psoas Muscle	Psoas
29	chr11:86157800-86166400	Weak transcription	Brain Hippocampus Middle	brain
30	chr11:86158000-86170800	Weak transcription	Fetal Muscle Trunk	muscle
31	chr11:86158200-86167600	Weak transcription	Spleen	Spleen
32	chr11:86158400-86161600	Enhancers	Primary hematopoietic stem cells short term culture	blood
33	chr11:86158600-86161400	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
34	chr11:86158600-86167400	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
35	chr11:86158600-86167400	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
36	chr11:86158600-86167400	Weak transcription	Fetal Muscle Leg	muscle
37	chr11:86158600-86167400	Weak transcription	Left Ventricle	heart
38	chr11:86158600-86167400	Weak transcription	Ovary	ovary
39	chr11:86158600-86167400	Weak transcription	Skeletal Muscle Male	skeletal muscle
40	chr11:86158600-86169000	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
41	chr11:86158600-86169600	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
42	chr11:86158600-86170400	Weak transcription	Brain Anterior Caudate	brain
43	chr11:86158600-86170800	Weak transcription	Brain Inferior Temporal Lobe	brain
44	chr11:86158600-86170800	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
45	chr11:86158600-86171000	Weak transcription	Duodenum Smooth Muscle	Duodenum
46	chr11:86158600-86171000	Weak transcription	Gastric	stomach
47	chr11:86158600-86187200	Weak transcription	Duodenum Mucosa	Duodenum
48	chr11:86158800-86167400	Weak transcription	Skeletal Muscle Female	skeletal muscle
49	chr11:86158800-86168200	Weak transcription	Aorta	Aorta
50	chr11:86159200-86170800	Weak transcription	Fetal Intestine Small	intestine

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links