Variant report

Variant	rs1661035
Chromosome Location	chr5:112051828-112051829
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr5:112040661..112045747-chr5:112046493..112054139,9	MCF-7	breast:
2	chr5:112046065..112047695-chr5:112050891..112052551,2	K562	blood:
3	chr5:112050398..112055694-chr5:112065977..112068837,5	K562	blood:

Variant related genes	Relation type
ENSG00000134982	Chromatin interaction

Extended variants
information (count: 89 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:88)

rs_ID	r²[population]
rs10076641	0.98[ASN][1000 genomes]
rs10463642	0.81[EUR][1000 genomes]
rs10463643	0.84[CEU][hapmap];0.83[CHB][hapmap];0.85[JPT][hapmap];0.89[AMR][1000 genomes];0.91[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs1069061	0.88[CEU][hapmap]
rs1093677	0.87[CEU][hapmap]
rs11954856	0.92[CHB][hapmap];0.92[JPT][hapmap];0.84[ASN][1000 genomes]
rs12513804	0.92[CHB][hapmap];0.92[JPT][hapmap];0.85[ASN][1000 genomes]
rs12719151	0.92[CHB][hapmap];0.92[JPT][hapmap];0.87[ASN][1000 genomes]
rs1441375	0.96[CEU][hapmap];0.92[CHB][hapmap];1.00[JPT][hapmap];0.96[YRI][hapmap];0.88[AFR][1000 genomes];0.95[AMR][1000 genomes];0.96[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs1465910	1.00[CHB][hapmap];1.00[JPT][hapmap];0.97[ASN][1000 genomes]
rs151976	0.87[CEU][hapmap]
rs151977	0.88[CEU][hapmap]
rs153546	0.84[CEU][hapmap]
rs1661036	0.88[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs1734243	0.82[EUR][1000 genomes]
rs187075	0.85[EUR][1000 genomes]
rs1966477	0.87[EUR][1000 genomes]
rs2020383	0.92[CHB][hapmap];1.00[JPT][hapmap];0.83[ASN][1000 genomes]
rs2229992	0.88[CEU][hapmap]
rs2431238	0.84[CEU][hapmap]
rs2439591	0.96[CEU][hapmap];0.92[CHB][hapmap];0.92[JPT][hapmap];0.83[YRI][hapmap];0.83[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs2464805	0.96[CEU][hapmap];0.83[YRI][hapmap];0.81[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs2545159	0.84[EUR][1000 genomes]
rs2545162	1.00[CEU][hapmap];0.83[CHB][hapmap];0.83[EUR][1000 genomes]
rs2545163	1.00[CEU][hapmap];0.86[EUR][1000 genomes]
rs2545165	0.89[CEU][hapmap];0.84[CHB][hapmap]
rs2545166	0.88[CEU][hapmap]
rs2545167	0.88[CEU][hapmap]
rs2545169	1.00[CEU][hapmap];0.87[EUR][1000 genomes]
rs2546110	0.88[CEU][hapmap]
rs2546111	0.87[EUR][1000 genomes]
rs2546116	0.83[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs2900066	0.86[ASN][1000 genomes]
rs2909786	0.92[CHB][hapmap]
rs2909787	0.92[CHB][hapmap]
rs2909958	0.92[CHB][hapmap]
rs2952615	0.89[CEU][hapmap];0.86[CHB][hapmap]
rs351769	0.84[CEU][hapmap]
rs351771	0.88[CEU][hapmap];0.92[CHB][hapmap]
rs372492	0.89[CEU][hapmap]
rs382260	0.88[CEU][hapmap]
rs3846716	1.00[CHB][hapmap];1.00[JPT][hapmap];0.98[ASN][1000 genomes]
rs386830	0.83[EUR][1000 genomes]
rs392907	1.00[CEU][hapmap];0.83[YRI][hapmap];0.86[EUR][1000 genomes]
rs395266	0.87[EUR][1000 genomes]
rs397768	0.83[EUR][1000 genomes]
rs401908	0.89[EUR][1000 genomes]
rs4099181	0.92[CHB][hapmap];0.92[JPT][hapmap]
rs41115	0.88[CEU][hapmap];0.92[CHB][hapmap];0.80[EUR][1000 genomes]
rs411356	1.00[CEU][hapmap];0.92[CHB][hapmap];0.87[EUR][1000 genomes]
rs419632	0.84[CEU][hapmap]
rs42427	0.88[CEU][hapmap];0.92[CHB][hapmap]
rs431287	0.89[CEU][hapmap]
rs433429	0.83[EUR][1000 genomes]
rs434157	0.88[CEU][hapmap]
rs456313	0.84[CEU][hapmap]
rs458967	0.87[EUR][1000 genomes]
rs463229	0.89[CEU][hapmap]
rs464002	1.00[CEU][hapmap];0.92[CHB][hapmap];1.00[JPT][hapmap];0.84[AMR][1000 genomes];0.93[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs464708	1.00[CEU][hapmap];0.83[CHB][hapmap];0.85[EUR][1000 genomes]
rs465454	0.84[CEU][hapmap]
rs465899	0.88[CEU][hapmap];0.92[CHB][hapmap]
rs468179	0.89[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs469760	0.88[CEU][hapmap]
rs4705609	0.91[ASN][1000 genomes]
rs4705815	0.91[CHB][hapmap];0.92[JPT][hapmap];0.87[ASN][1000 genomes]
rs4705816	0.92[CHB][hapmap];0.90[JPT][hapmap];0.87[ASN][1000 genomes]
rs495794	0.84[CEU][hapmap]
rs501250	0.88[CEU][hapmap]
rs514763	0.84[CEU][hapmap]
rs519397	0.84[CEU][hapmap]
rs529076	0.87[EUR][1000 genomes]
rs56335290	0.87[ASN][1000 genomes]
rs563556	0.96[CEU][hapmap];0.86[EUR][1000 genomes]
rs6594643	0.92[JPT][hapmap]
rs6594644	0.92[CHB][hapmap];0.92[JPT][hapmap];0.86[ASN][1000 genomes]
rs6864688	0.92[CHB][hapmap];1.00[JPT][hapmap];0.90[ASN][1000 genomes]
rs6894351	1.00[CHB][hapmap];1.00[JPT][hapmap];0.98[ASN][1000 genomes]
rs6898133	1.00[CHB][hapmap];1.00[JPT][hapmap];0.98[ASN][1000 genomes]
rs712668	0.89[CEU][hapmap]
rs7213	0.84[CEU][hapmap]
rs818425	0.84[CEU][hapmap]
rs818427	0.89[CEU][hapmap]
rs861674	0.92[CHB][hapmap];1.00[JPT][hapmap];0.84[ASN][1000 genomes]
rs866006	0.85[CEU][hapmap];0.85[CHB][hapmap];0.80[EUR][1000 genomes]
rs9011	0.84[CEU][hapmap]
rs9326862	0.92[CHB][hapmap];1.00[JPT][hapmap];0.90[ASN][1000 genomes]
rs971517	0.86[ASN][1000 genomes]

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

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv830450	chr5:111964170-112134510	Active TSS Enhancers Weak transcription Strong transcription Flanking Active TSS Genic enhancers ZNF genes & repeats Bivalent Enhancer Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	18 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs1661035	SRP19	Cis_1M	lymphoblastoid	RTeQTL

Chromatin state (count:66 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr5:112044800-112052200	Enhancers	Primary neutrophils fromperipheralblood	blood
2	chr5:112044800-112058000	Weak transcription	H9 Cell Line	embryonic stem cell
3	chr5:112044800-112058800	Weak transcription	Fetal Muscle Trunk	muscle
4	chr5:112045200-112053200	Weak transcription	ES-I3 Cell Line	embryonic stem cell
5	chr5:112045200-112054000	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
6	chr5:112045400-112052600	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
7	chr5:112045400-112053000	Weak transcription	HUES64 Cell Line	embryonic stem cell
8	chr5:112045400-112054400	Weak transcription	NHEK	skin
9	chr5:112045400-112062000	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
10	chr5:112045600-112054000	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
11	chr5:112045600-112054600	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
12	chr5:112045600-112060200	Weak transcription	NHLF	lung
13	chr5:112045600-112061600	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
14	chr5:112045600-112063600	Weak transcription	Ovary	ovary
15	chr5:112045800-112054000	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
16	chr5:112046000-112054000	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
17	chr5:112046000-112069200	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
18	chr5:112046400-112053200	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
19	chr5:112046800-112053200	Weak transcription	Fetal Lung	lung
20	chr5:112047000-112060400	Weak transcription	Primary B cells from peripheral blood	blood
21	chr5:112047000-112061600	Weak transcription	Aorta	Aorta
22	chr5:112047000-112066000	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
23	chr5:112047200-112052400	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
24	chr5:112047200-112054000	Weak transcription	Right Ventricle	heart
25	chr5:112047400-112052800	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
26	chr5:112047400-112053200	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
27	chr5:112047400-112054000	Weak transcription	iPS-20b Cell Line	embryonic stem cell
28	chr5:112047400-112056200	Weak transcription	Dnd41	blood
29	chr5:112047400-112058600	Weak transcription	Stomach Smooth Muscle	stomach
30	chr5:112047400-112060400	Weak transcription	Fetal Intestine Large	intestine
31	chr5:112047400-112072400	Weak transcription	Thymus	Thymus
32	chr5:112047600-112054000	Weak transcription	Pancreas	Pancrea
33	chr5:112047600-112061600	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
34	chr5:112048200-112052200	Weak transcription	Primary T cells from cord blood	blood
35	chr5:112048200-112054000	Weak transcription	Duodenum Smooth Muscle	Duodenum
36	chr5:112048200-112054000	Weak transcription	Gastric	stomach
37	chr5:112048200-112058200	Weak transcription	Skeletal Muscle Female	skeletal muscle
38	chr5:112048400-112053800	Weak transcription	Brain Inferior Temporal Lobe	brain
39	chr5:112048400-112061200	Weak transcription	Fetal Intestine Small	intestine
40	chr5:112049200-112054000	Weak transcription	Brain Angular Gyrus	brain
41	chr5:112049200-112054000	Weak transcription	Brain Cingulate Gyrus	brain
42	chr5:112049200-112054000	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
43	chr5:112049200-112054200	Weak transcription	Colon Smooth Muscle	Colon
44	chr5:112049200-112061600	Weak transcription	Fetal Stomach	stomach
45	chr5:112049600-112054000	Weak transcription	Breast Myoepithelial Primary Cells	Breast
46	chr5:112049600-112054000	Weak transcription	Left Ventricle	heart
47	chr5:112049600-112054000	Weak transcription	Psoas Muscle	Psoas
48	chr5:112049600-112054000	Weak transcription	Small Intestine	intestine
49	chr5:112049600-112054200	Weak transcription	Brain Hippocampus Middle	brain
50	chr5:112049600-112055800	Weak transcription	Primary T helper cells PMA-I stimulated	--

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