Variant report

Variant	rs17301432
Chromosome Location	chr13:97991179-97991180
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr13:97887496..97890340-chr13:97991017..97992548,2	K562	blood:
2	chr13:97985220..97987596-chr13:97990645..97993198,3	K562	blood:
3	chr13:97990074..97993792-chr13:97995202..97997609,3	K562	blood:
4	chr13:97907616..97910279-chr13:97990865..97992598,2	MCF-7	breast:

Extended variants
information (count: 23 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:21)

rs_ID	r²[population]
rs11618766	0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs11839205	1.00[CEU][hapmap];0.91[YRI][hapmap]
rs11843522	1.00[CEU][hapmap];0.84[CHB][hapmap]
rs1553010	0.91[CEU][hapmap];0.90[CHB][hapmap];0.91[CHD][hapmap];0.96[GIH][hapmap];0.86[JPT][hapmap];1.00[LWK][hapmap];0.93[MEX][hapmap];0.94[MKK][hapmap];0.90[TSI][hapmap];0.91[YRI][hapmap];1.00[AMR][1000 genomes];0.95[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs1553011	1.00[ASW][hapmap];1.00[CEU][hapmap];0.90[CHB][hapmap];0.91[CHD][hapmap];0.91[GIH][hapmap];0.86[JPT][hapmap];0.83[LWK][hapmap];0.93[MEX][hapmap];0.81[TSI][hapmap];0.90[YRI][hapmap];0.92[AFR][1000 genomes];1.00[AMR][1000 genomes];0.95[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs3782984	0.91[CEU][hapmap];0.84[CHB][hapmap]
rs3782986	1.00[CEU][hapmap];0.82[CHB][hapmap];0.80[YRI][hapmap]
rs59101263	0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs59190871	0.94[AMR][1000 genomes];0.93[ASN][1000 genomes]
rs66473447	0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs7992346	0.91[CEU][hapmap];0.90[CHB][hapmap];1.00[YRI][hapmap];0.81[EUR][1000 genomes]
rs875104	1.00[CEU][hapmap];0.90[CHB][hapmap];0.86[JPT][hapmap];0.91[YRI][hapmap];1.00[AMR][1000 genomes];0.95[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs9513238	0.87[AMR][1000 genomes];0.83[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs9516905	0.86[JPT][hapmap];0.80[MEX][hapmap]
rs9516909	0.87[JPT][hapmap];0.96[AMR][1000 genomes];0.93[ASN][1000 genomes]
rs9516912	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9516916	1.00[ASW][hapmap];1.00[CEU][hapmap];0.90[CHB][hapmap];0.83[GIH][hapmap];1.00[LWK][hapmap];0.90[TSI][hapmap];1.00[YRI][hapmap];0.81[EUR][1000 genomes]
rs9582128	0.88[CEU][hapmap];0.84[CHB][hapmap];0.83[JPT][hapmap];1.00[YRI][hapmap]
rs9584552	0.95[CHB][hapmap];0.93[JPT][hapmap]
rs9584563	0.90[CEU][hapmap];0.84[CHB][hapmap];0.90[YRI][hapmap];0.81[EUR][1000 genomes]
rs9584565	1.00[CEU][hapmap];0.84[CHB][hapmap]

Variant overlapped rSNPs/rCNVs (count:2 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv832694	chr13:97930561-98137882	ZNF genes & repeats Weak transcription Strong transcription Enhancers Flanking Active TSS Active TSS Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	4 gene(s)	inside rSNPs	diseases
2	esv3398856	chr13:97990623-97992426	Weak transcription Strong transcription Genic enhancers Enhancers Flanking Active TSS Transcr. at gene 5' and 3' Active TSS	Chromatin interactive region	n/a	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs17301432	GPR183	cis	cerebellum	SCAN

Chromatin state (count:111 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr13:97942800-97995200	Weak transcription	Thymus	Thymus
2	chr13:97962000-97991200	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
3	chr13:97967400-97991400	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
4	chr13:97971600-97991400	Weak transcription	Stomach Mucosa	stomach
5	chr13:97971800-97991800	Weak transcription	Small Intestine	intestine
6	chr13:97980800-97991800	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
7	chr13:97981000-97991400	Weak transcription	HMEC	breast
8	chr13:97981000-97998800	Weak transcription	Placenta Amnion	Placenta Amnion
9	chr13:97981200-97991400	Weak transcription	Muscle Satellite Cultured Cells	--
10	chr13:97982000-97991400	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
11	chr13:97982000-98002200	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
12	chr13:97982000-98009000	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
13	chr13:97982200-97991200	Weak transcription	Fetal Kidney	kidney
14	chr13:97982600-97991200	Weak transcription	K562	blood
15	chr13:97982600-98020800	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
16	chr13:97983000-97991200	Weak transcription	Fetal Heart	heart
17	chr13:97984000-98000800	Weak transcription	Primary T killer memory cells from peripheral blood	blood
18	chr13:97984400-97992400	Genic enhancers	Breast Myoepithelial Primary Cells	Breast
19	chr13:97985000-97991400	Weak transcription	GM12878-XiMat	blood
20	chr13:97985600-97992800	Strong transcription	HepG2	liver
21	chr13:97985800-97992000	Strong transcription	Primary B cells from cord blood	blood
22	chr13:97986200-97991600	Strong transcription	Primary T cells fromperipheralblood	blood
23	chr13:97986200-98003200	Weak transcription	Primary hematopoietic stem cells short term culture	blood
24	chr13:97986400-97991200	Strong transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
25	chr13:97986400-97991200	Strong transcription	IMR90 fetal lung fibroblasts Cell Line	lung
26	chr13:97986400-97991400	Strong transcription	Rectal Mucosa Donor 29	rectum
27	chr13:97986400-97992000	Strong transcription	Primary T cells from cord blood	blood
28	chr13:97986400-97992400	Genic enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
29	chr13:97986600-97991400	Strong transcription	Monocytes-CD14+_RO01746	blood
30	chr13:97986600-97991600	Strong transcription	Primary B cells from peripheral blood	blood
31	chr13:97986600-97998400	Weak transcription	Primary T helper naive cells from peripheral blood	blood
32	chr13:97986800-97991400	Strong transcription	Primary Natural Killer cells fromperipheralblood	blood
33	chr13:97987000-97991200	Weak transcription	Pancreatic Islets	Pancreatic Islet
34	chr13:97987200-97991400	Strong transcription	Rectal Mucosa Donor 31	rectum
35	chr13:97987200-97991400	Strong transcription	Sigmoid Colon	Sigmoid Colon
36	chr13:97987400-97991400	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
37	chr13:97987600-97991600	Strong transcription	Fetal Intestine Small	intestine
38	chr13:97987800-97991400	Weak transcription	A549	lung
39	chr13:97988000-97991200	Strong transcription	Adipose Nuclei	Adipose
40	chr13:97988000-97991200	Weak transcription	NHDF-Ad	bronchial
41	chr13:97988000-97991400	Strong transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
42	chr13:97988000-97991400	Strong transcription	Fetal Adrenal Gland	Adrenal Gland
43	chr13:97988000-97992200	Strong transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
44	chr13:97988200-97991200	Weak transcription	NHEK	skin
45	chr13:97988200-97991400	Strong transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
46	chr13:97988200-97991400	Strong transcription	Osteobl	bone
47	chr13:97988200-97992200	Strong transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
48	chr13:97988400-97991200	Strong transcription	Fetal Muscle Leg	muscle
49	chr13:97988600-97991200	Strong transcription	Fetal Muscle Trunk	muscle
50	chr13:97988800-97991200	Strong transcription	Fetal Intestine Large	intestine

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