Variant report

Variant	rs35405829
Chromosome Location	chr13:96601679-96601680
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 39 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:32)

rs_ID	r²[population]
rs13378684	0.92[AFR][1000 genomes];0.87[EUR][1000 genomes]
rs28625167	0.88[AMR][1000 genomes];0.89[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs28631067	0.84[ASN][1000 genomes]
rs28895285	0.95[AFR][1000 genomes];0.94[AMR][1000 genomes];0.88[ASN][1000 genomes]
rs3782991	0.95[AFR][1000 genomes];0.87[EUR][1000 genomes]
rs3825423	0.92[AFR][1000 genomes];0.87[EUR][1000 genomes]
rs4406928	0.97[AFR][1000 genomes];0.84[ASN][1000 genomes]
rs58509921	0.87[AFR][1000 genomes];0.87[AMR][1000 genomes];0.85[ASN][1000 genomes]
rs61152555	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs61422359	0.94[AMR][1000 genomes];1.00[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs7318577	0.87[EUR][1000 genomes]
rs7318647	0.81[AFR][1000 genomes]
rs7327257	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs7330135	0.88[AMR][1000 genomes];0.89[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs7332461	0.89[AFR][1000 genomes];0.87[EUR][1000 genomes]
rs7988464	0.93[AFR][1000 genomes];0.84[ASN][1000 genomes]
rs7990333	0.94[AMR][1000 genomes];1.00[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs7990743	0.94[AMR][1000 genomes];1.00[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs9584330	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs9584331	0.97[AFR][1000 genomes]
rs9584332	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs9584335	0.92[AFR][1000 genomes];0.87[EUR][1000 genomes]
rs9590335	0.92[AFR][1000 genomes]
rs9590338	0.97[AFR][1000 genomes];0.84[ASN][1000 genomes]
rs9590340	0.90[AFR][1000 genomes];1.00[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs9590341	0.93[AFR][1000 genomes];0.87[AMR][1000 genomes];1.00[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs9590351	0.97[AFR][1000 genomes];0.94[AMR][1000 genomes];0.89[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs9590352	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs9590353	0.84[AFR][1000 genomes];0.95[ASN][1000 genomes]
rs9590354	0.95[AFR][1000 genomes];0.87[EUR][1000 genomes]
rs9590356	0.86[AFR][1000 genomes];0.87[EUR][1000 genomes]
rs9590357	0.87[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	nsv832691	chr13:96478098-96659823	Strong transcription Weak transcription ZNF genes & repeats Enhancers Genic enhancers Flanking Active TSS Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
2	nsv900935	chr13:96497070-96631221	Strong transcription ZNF genes & repeats Weak transcription Active TSS Enhancers Genic enhancers Flanking Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
3	nsv1050430	chr13:96508530-97020734	Weak transcription Strong transcription Flanking Active TSS Active TSS Enhancers Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent/Poised TSS Bivalent Enhancer Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	13 gene(s)	inside rSNPs	diseases
4	nsv541883	chr13:96508530-97020734	Enhancers Weak transcription ZNF genes & repeats Active TSS Strong transcription Flanking Bivalent TSS/Enh Flanking Active TSS Bivalent/Poised TSS Bivalent Enhancer Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	13 gene(s)	inside rSNPs	diseases
5	nsv1041165	chr13:96522021-96966520	Enhancers Bivalent/Poised TSS Weak transcription Active TSS ZNF genes & repeats Strong transcription Flanking Bivalent TSS/Enh Flanking Active TSS Bivalent Enhancer Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases
6	nsv1051574	chr13:96550653-96779248	Strong transcription Weak transcription Active TSS ZNF genes & repeats Enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS Flanking Active TSS Genic enhancers Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases
7	nsv1040320	chr13:96573646-96790859	Active TSS Weak transcription Bivalent/Poised TSS Flanking Active TSS Enhancers ZNF genes & repeats Strong transcription Bivalent Enhancer Flanking Bivalent TSS/Enh Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:76 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr13:96577000-96623200	Weak transcription	NHLF	lung
2	chr13:96577800-96608800	Weak transcription	NHEK	skin
3	chr13:96584200-96611000	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
4	chr13:96588600-96603400	Weak transcription	NH-A	brain
5	chr13:96588800-96605400	Weak transcription	Primary hematopoietic stem cells	blood
6	chr13:96588800-96606400	Weak transcription	Fetal Heart	heart
7	chr13:96588800-96611200	Weak transcription	Gastric	stomach
8	chr13:96589000-96602200	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
9	chr13:96589000-96602200	Weak transcription	Primary hematopoietic stem cells short term culture	blood
10	chr13:96589000-96602200	Weak transcription	Brain Hippocampus Middle	brain
11	chr13:96589000-96602600	Weak transcription	Brain Anterior Caudate	brain
12	chr13:96589000-96603000	Weak transcription	Fetal Kidney	kidney
13	chr13:96589000-96603600	Weak transcription	Right Ventricle	heart
14	chr13:96589000-96604400	Weak transcription	Placenta	Placenta
15	chr13:96589000-96605800	Weak transcription	Pancreatic Islets	Pancreatic Islet
16	chr13:96589000-96609600	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
17	chr13:96589000-96609600	Weak transcription	Sigmoid Colon	Sigmoid Colon
18	chr13:96589000-96611000	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
19	chr13:96589000-96611000	Weak transcription	Pancreas	Pancrea
20	chr13:96589000-96611800	Weak transcription	A549	lung
21	chr13:96589000-96611800	Weak transcription	HepG2	liver
22	chr13:96589000-96612000	Weak transcription	Brain Inferior Temporal Lobe	brain
23	chr13:96589000-96615600	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
24	chr13:96589200-96602200	Weak transcription	Fetal Intestine Small	intestine
25	chr13:96589200-96609600	Weak transcription	Cortex derived primary cultured neurospheres	brain
26	chr13:96589200-96609600	Weak transcription	Fetal Stomach	stomach
27	chr13:96589400-96608600	Weak transcription	Brain Germinal Matrix	brain
28	chr13:96591400-96605800	Weak transcription	Duodenum Mucosa	Duodenum
29	chr13:96591400-96609200	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
30	chr13:96591600-96602200	Weak transcription	Lung	lung
31	chr13:96591600-96603600	Weak transcription	Fetal Lung	lung
32	chr13:96591600-96603600	Weak transcription	Fetal Muscle Leg	muscle
33	chr13:96591600-96605000	Weak transcription	H1 Cell Line	embryonic stem cell
34	chr13:96591600-96608400	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
35	chr13:96591600-96608800	Weak transcription	K562	blood
36	chr13:96591600-96611000	Weak transcription	Skeletal Muscle Male	skeletal muscle
37	chr13:96591600-96622000	Weak transcription	Hela-S3	cervix
38	chr13:96591800-96602200	Weak transcription	Rectal Mucosa Donor 31	rectum
39	chr13:96592200-96602000	Weak transcription	Fetal Intestine Large	intestine
40	chr13:96592200-96602200	Weak transcription	iPS-18 Cell Line	embryonic stem cell
41	chr13:96592200-96602800	Weak transcription	Rectal Smooth Muscle	rectum
42	chr13:96592200-96603600	Weak transcription	HUES48 Cell Line	embryonic stem cell
43	chr13:96592200-96603600	Weak transcription	Ovary	ovary
44	chr13:96592200-96605000	Weak transcription	HUES6 Cell Line	embryonic stem cell
45	chr13:96592200-96608000	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
46	chr13:96592200-96608800	Weak transcription	Duodenum Smooth Muscle	Duodenum
47	chr13:96592200-96609600	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
48	chr13:96592200-96611200	Weak transcription	Liver	Liver
49	chr13:96592200-96611800	Weak transcription	Aorta	Aorta
50	chr13:96592200-96612000	Weak transcription	Stomach Smooth Muscle	stomach

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