Variant report

Variant	rs11671779
Chromosome Location	chr19:38833350-38833351
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 45 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:42)

rs_ID	r²[population]
rs11668355	0.83[AMR][1000 genomes];0.84[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs11668651	0.96[ASN][1000 genomes]
rs11669131	0.93[AMR][1000 genomes];0.97[ASN][1000 genomes]
rs11669230	0.80[AMR][1000 genomes];0.92[ASN][1000 genomes]
rs11672219	1.00[CHB][hapmap];1.00[JPT][hapmap];0.80[AMR][1000 genomes];0.90[ASN][1000 genomes]
rs11672531	1.00[CHB][hapmap];1.00[JPT][hapmap];0.92[ASN][1000 genomes]
rs11672793	0.96[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs11673012	0.94[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.99[AMR][1000 genomes];0.98[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs11673203	0.88[ASN][1000 genomes]
rs11673222	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12459746	0.89[CEU][hapmap]
rs2270093	0.95[EUR][1000 genomes]
rs2270094	1.00[CEU][hapmap];0.95[EUR][1000 genomes]
rs2270095	0.84[CEU][hapmap]
rs2286475	0.84[CEU][hapmap]
rs2286476	0.84[CEU][hapmap]
rs2302182	0.91[CHB][hapmap];1.00[JPT][hapmap];0.93[AMR][1000 genomes];0.97[ASN][1000 genomes]
rs2302183	0.97[ASN][1000 genomes]
rs2304176	0.84[CEU][hapmap]
rs2304177	1.00[CHB][hapmap];1.00[JPT][hapmap];0.80[AMR][1000 genomes];0.90[ASN][1000 genomes]
rs2368484	0.93[AMR][1000 genomes];0.97[ASN][1000 genomes]
rs2887262	0.93[AMR][1000 genomes]
rs34989303	0.89[AMR][1000 genomes];0.94[ASN][1000 genomes]
rs35308902	0.80[AMR][1000 genomes];0.90[ASN][1000 genomes]
rs3745951	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.85[AFR][1000 genomes];0.94[AMR][1000 genomes];0.93[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs3745952	0.93[AMR][1000 genomes];0.98[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs3816044	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs4386247	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs45437199	0.82[AMR][1000 genomes];0.96[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs4802326	0.80[AMR][1000 genomes];0.90[ASN][1000 genomes]
rs4802327	1.00[CHB][hapmap];1.00[JPT][hapmap];0.80[AMR][1000 genomes];0.90[ASN][1000 genomes]
rs4802351	0.82[CEU][hapmap]
rs4804016	0.87[AMR][1000 genomes];0.94[ASN][1000 genomes]
rs4804046	1.00[CEU][hapmap];0.90[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs60082376	0.83[AMR][1000 genomes];0.99[ASN][1000 genomes]
rs61091932	0.81[AMR][1000 genomes]
rs73041302	0.87[AFR][1000 genomes];0.94[AMR][1000 genomes];0.98[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs8101488	0.87[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs8106900	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.99[AMR][1000 genomes];0.96[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs8112211	0.84[CEU][hapmap]
rs931749	1.00[CEU][hapmap];0.92[CHB][hapmap];1.00[JPT][hapmap];0.93[AMR][1000 genomes];0.98[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs931750	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.87[AFR][1000 genomes];0.94[AMR][1000 genomes];0.98[EUR][1000 genomes];0.94[ASN][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	nsv1063471	chr19:38734744-39148392	Weak transcription Enhancers Flanking Active TSS Bivalent/Poised TSS Genic enhancers Strong transcription Bivalent Enhancer Active TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	73 gene(s)	inside rSNPs	diseases
2	nsv833822	chr19:38760748-38945105	Strong transcription Weak transcription Enhancers Flanking Bivalent TSS/Enh Active TSS Genic enhancers Bivalent Enhancer Flanking Active TSS Bivalent/Poised TSS Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	50 gene(s)	inside rSNPs	diseases
3	nsv911658	chr19:38785318-39002140	Genic enhancers Weak transcription Active TSS Strong transcription Flanking Active TSS Bivalent/Poised TSS Enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	55 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs11671779	C19orf33	cis	normal skin	skin_eQTL

Chromatin state (count:74 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr19:38828000-38833400	Weak transcription	Aorta	Aorta
2	chr19:38828000-38834600	Weak transcription	Sigmoid Colon	Sigmoid Colon
3	chr19:38828000-38838400	Weak transcription	HSMMtube	muscle
4	chr19:38828200-38833400	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
5	chr19:38828200-38833400	Weak transcription	Spleen	Spleen
6	chr19:38828200-38833800	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
7	chr19:38828200-38834000	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
8	chr19:38828200-38834000	Weak transcription	Brain Hippocampus Middle	brain
9	chr19:38828200-38834600	Weak transcription	Gastric	stomach
10	chr19:38828200-38834800	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
11	chr19:38828200-38836400	Weak transcription	Brain Cingulate Gyrus	brain
12	chr19:38828200-38836600	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
13	chr19:38828200-38836800	Weak transcription	Cortex derived primary cultured neurospheres	brain
14	chr19:38828200-38837000	Weak transcription	Colon Smooth Muscle	Colon
15	chr19:38828200-38837400	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
16	chr19:38828200-38838000	Weak transcription	Monocytes-CD14+_RO01746	blood
17	chr19:38828200-38838200	Weak transcription	Rectal Smooth Muscle	rectum
18	chr19:38828200-38838400	Weak transcription	Colonic Mucosa	Colon
19	chr19:38828200-38838400	Weak transcription	Duodenum Smooth Muscle	Duodenum
20	chr19:38828200-38839000	Weak transcription	Brain Anterior Caudate	brain
21	chr19:38828200-38840400	Weak transcription	Left Ventricle	heart
22	chr19:38828200-38841400	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
23	chr19:38828200-38842000	Weak transcription	Brain Angular Gyrus	brain
24	chr19:38828200-38842600	Weak transcription	Esophagus	oesophagus
25	chr19:38828200-38844800	Weak transcription	Brain Substantia Nigra	brain
26	chr19:38828200-38852000	Weak transcription	Right Atrium	heart
27	chr19:38828400-38834200	Weak transcription	Fetal Brain Male	brain
28	chr19:38828400-38834600	Weak transcription	Fetal Muscle Leg	muscle
29	chr19:38828400-38834800	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
30	chr19:38828400-38835000	Weak transcription	iPS-20b Cell Line	embryonic stem cell
31	chr19:38828400-38835400	Weak transcription	Primary monocytes fromperipheralblood	blood
32	chr19:38828400-38836200	Weak transcription	Skeletal Muscle Female	skeletal muscle
33	chr19:38828400-38836800	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
34	chr19:38828400-38837200	Weak transcription	Primary B cells from peripheral blood	blood
35	chr19:38828400-38837800	Weak transcription	Rectal Mucosa Donor 31	rectum
36	chr19:38828400-38838200	Weak transcription	Adipose Nuclei	Adipose
37	chr19:38828400-38839200	Weak transcription	Skeletal Muscle Male	skeletal muscle
38	chr19:38828400-38839600	Weak transcription	Primary T cells from cord blood	blood
39	chr19:38828400-38839800	Weak transcription	Brain Inferior Temporal Lobe	brain
40	chr19:38828400-38839800	Weak transcription	Right Ventricle	heart
41	chr19:38828400-38840000	Weak transcription	iPS-15b Cell Line	embryonic stem cell
42	chr19:38828600-38838800	Weak transcription	Primary B cells from cord blood	blood
43	chr19:38828600-38839000	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
44	chr19:38828600-38839600	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
45	chr19:38828800-38837000	Weak transcription	Primary T killer memory cells from peripheral blood	blood
46	chr19:38829000-38838600	Weak transcription	Primary T helper cells fromperipheralblood	blood
47	chr19:38829400-38834600	Weak transcription	Dnd41	blood
48	chr19:38829400-38834800	Weak transcription	Pancreas	Pancrea
49	chr19:38829400-38835000	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
50	chr19:38829400-38836600	Weak transcription	Primary T helper cells PMA-I stimulated	--

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links