Variant report

Variant	rs55928651
Chromosome Location	chr11:17042792-17042793
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-NUCB2-6	chr11:17042246-17043656	NONHSAT018198

Extended variants
information (count: 37 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:33)

rs_ID	r²[population]
rs11024132	0.89[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs11603461	1.00[ASN][1000 genomes]
rs11604470	1.00[ASN][1000 genomes]
rs11604561	1.00[ASN][1000 genomes]
rs11605779	0.83[AMR][1000 genomes];0.85[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11827341	0.94[AFR][1000 genomes];0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12417522	0.86[AFR][1000 genomes];0.93[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12418260	1.00[ASN][1000 genomes]
rs12419179	0.83[AMR][1000 genomes];0.80[EUR][1000 genomes]
rs1544609	1.00[ASN][1000 genomes]
rs28845191	0.80[AFR][1000 genomes];0.86[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs35297605	1.00[ASN][1000 genomes]
rs55763300	1.00[ASN][1000 genomes]
rs56254605	0.90[AFR][1000 genomes];0.92[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs59007596	0.86[ASN][1000 genomes]
rs59075718	1.00[ASN][1000 genomes]
rs61762011	1.00[ASN][1000 genomes]
rs61879669	1.00[ASN][1000 genomes]
rs61879670	0.82[AFR][1000 genomes];0.86[AMR][1000 genomes];0.84[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs61879673	1.00[ASN][1000 genomes]
rs61879686	1.00[ASN][1000 genomes]
rs61879698	1.00[ASN][1000 genomes]
rs61879699	1.00[ASN][1000 genomes]
rs61879703	1.00[ASN][1000 genomes]
rs61879714	1.00[ASN][1000 genomes]
rs61879715	1.00[ASN][1000 genomes]
rs61879721	1.00[ASN][1000 genomes]
rs61879731	1.00[ASN][1000 genomes]
rs61881312	0.90[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72869096	1.00[ASN][1000 genomes]
rs72870837	0.83[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs72870840	0.83[AMR][1000 genomes];0.84[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7481457	0.87[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:4 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv832077	chr11:16834545-17059176	Enhancers Weak transcription Bivalent Enhancer Flanking Active TSS Bivalent/Poised TSS Strong transcription Flanking Bivalent TSS/Enh Genic enhancers ZNF genes & repeats Active TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	14 gene(s)	inside rSNPs	diseases
2	nsv825771	chr11:17027229-17048360	Flanking Active TSS Bivalent/Poised TSS Active TSS Enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh Weak transcription Strong transcription Genic enhancers ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases
3	nsv467711	chr11:17027555-17320797	Weak transcription Strong transcription Active TSS Genic enhancers Flanking Active TSS Enhancers Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	55 gene(s)	inside rSNPs	diseases
4	nsv553568	chr11:17027555-17320797	Enhancers Weak transcription Strong transcription Flanking Active TSS Active TSS Flanking Bivalent TSS/Enh Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3' Bivalent Enhancer ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	55 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:39 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr11:17037000-17050200	Weak transcription	Adipose Nuclei	Adipose
2	chr11:17037200-17042800	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
3	chr11:17037200-17043000	Weak transcription	HUES48 Cell Line	embryonic stem cell
4	chr11:17037200-17050400	Weak transcription	Brain Anterior Caudate	brain
5	chr11:17037200-17056000	Weak transcription	Breast Myoepithelial Primary Cells	Breast
6	chr11:17037400-17044400	Weak transcription	Rectal Mucosa Donor 29	rectum
7	chr11:17037600-17042800	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
8	chr11:17037600-17046400	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
9	chr11:17037600-17048400	Weak transcription	Sigmoid Colon	Sigmoid Colon
10	chr11:17037600-17049400	Weak transcription	Fetal Muscle Trunk	muscle
11	chr11:17037600-17058400	Weak transcription	Rectal Mucosa Donor 31	rectum
12	chr11:17037600-17058600	Weak transcription	Gastric	stomach
13	chr11:17037800-17044600	Weak transcription	Duodenum Mucosa	Duodenum
14	chr11:17037800-17048200	Weak transcription	Stomach Mucosa	stomach
15	chr11:17037800-17057400	Weak transcription	Fetal Stomach	stomach
16	chr11:17037800-17057800	Weak transcription	Pancreas	Pancrea
17	chr11:17038000-17043000	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
18	chr11:17038800-17046200	Weak transcription	H9 Cell Line	embryonic stem cell
19	chr11:17039600-17049600	Weak transcription	Thymus	Thymus
20	chr11:17041200-17051800	Weak transcription	Fetal Intestine Large	intestine
21	chr11:17041600-17042800	Weak transcription	HSMM	muscle
22	chr11:17042000-17042800	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
23	chr11:17042000-17043600	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
24	chr11:17042400-17042800	Enhancers	ES-I3 Cell Line	embryonic stem cell
25	chr11:17042400-17042800	Enhancers	Osteobl	bone
26	chr11:17042400-17043000	Enhancers	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
27	chr11:17042400-17043000	Flanking Active TSS	Muscle Satellite Cultured Cells	--
28	chr11:17042400-17043200	Enhancers	iPS-15b Cell Line	embryonic stem cell
29	chr11:17042400-17043400	Strong transcription	Liver	Liver
30	chr11:17042400-17043400	Enhancers	A549	lung
31	chr11:17042400-17048200	Weak transcription	HepG2	liver
32	chr11:17042600-17042800	Bivalent Enhancer	HUES6 Cell Line	embryonic stem cell
33	chr11:17042600-17043000	Enhancers	H1 Cell Line	embryonic stem cell
34	chr11:17042600-17043000	Enhancers	NH-A	brain
35	chr11:17042600-17043200	Enhancers	iPS-20b Cell Line	embryonic stem cell
36	chr11:17042600-17043400	Enhancers	HUES64 Cell Line	embryonic stem cell
37	chr11:17042600-17043400	Enhancers	Foreskin Melanocyte Primary Cells skin01	Skin
38	chr11:17042600-17043800	Enhancers	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
39	chr11:17042600-17044400	Strong transcription	Fetal Intestine Small	intestine

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