Variant report

Variant	rs13231645
Chromosome Location	chr7:27674607-27674608
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr7:27674365..27676179-chr7:27687699..27690362,2	MCF-7	breast:
2	chr7:27674511..27676385-chr7:27740361..27743199,2	K562	blood:

Extended variants
information (count: 42 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:41)

rs_ID	r²[population]
rs1000317	1.00[CEU][hapmap];0.83[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs1009253	0.89[GIH][hapmap]
rs10951174	0.94[CEU][hapmap];0.84[YRI][hapmap]
rs11520772	0.82[CEU][hapmap]
rs12155171	0.94[EUR][1000 genomes]
rs12532737	0.89[AFR][1000 genomes];0.97[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs12534474	0.93[TSI][hapmap]
rs12539472	0.82[CEU][hapmap]
rs13227521	1.00[CEU][hapmap];0.83[GIH][hapmap];0.82[MEX][hapmap];0.96[TSI][hapmap];0.82[EUR][1000 genomes]
rs13227574	1.00[ASW][hapmap];0.89[CEU][hapmap];1.00[GIH][hapmap];0.95[LWK][hapmap];1.00[MEX][hapmap];1.00[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];0.95[AFR][1000 genomes];0.97[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs13232561	1.00[CEU][hapmap];0.96[GIH][hapmap];0.82[MEX][hapmap];0.93[TSI][hapmap]
rs13236065	0.95[EUR][1000 genomes]
rs13236908	1.00[CEU][hapmap];0.83[EUR][1000 genomes]
rs13237776	0.96[TSI][hapmap]
rs13241127	0.89[AMR][1000 genomes]
rs13247831	0.81[EUR][1000 genomes]
rs34578407	0.86[EUR][1000 genomes]
rs34638402	0.89[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs35105727	0.89[AFR][1000 genomes];0.97[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs35232956	0.81[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs35536764	0.93[EUR][1000 genomes]
rs35733141	0.80[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs35771883	1.00[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs35816118	0.81[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs35925990	0.82[EUR][1000 genomes]
rs36069602	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs36114463	0.87[EUR][1000 genomes]
rs4391326	0.84[EUR][1000 genomes]
rs4719901	0.83[ASW][hapmap];1.00[CEU][hapmap];0.85[GIH][hapmap];0.82[MEX][hapmap];1.00[TSI][hapmap];0.83[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs4722725	0.88[CEU][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs6944455	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs6968631	0.97[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs6969043	0.90[AFR][1000 genomes];0.97[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs6969207	0.82[CEU][hapmap];0.93[AFR][1000 genomes];0.97[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs71539523	0.80[EUR][1000 genomes]
rs71539525	0.83[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs71539526	0.83[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs71539527	0.89[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs71539529	0.94[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs71539544	0.81[EUR][1000 genomes]
rs71555704	0.80[AMR][1000 genomes];1.00[EUR][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	nsv949025	chr7:27578167-28075172	Active TSS Weak transcription Enhancers Genic enhancers Strong transcription Flanking Active TSS ZNF genes & repeats Bivalent/Poised TSS Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	26 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs13231645	HIBADH	Cis_1M	lymphoblastoid	RTeQTL

Chromatin state (count:110 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr7:27654400-27696400	Weak transcription	Gastric	stomach
2	chr7:27658800-27687800	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
3	chr7:27658800-27688600	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
4	chr7:27659800-27675400	Weak transcription	Skeletal Muscle Male	skeletal muscle
5	chr7:27659800-27679000	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
6	chr7:27660000-27680600	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
7	chr7:27660400-27675600	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
8	chr7:27660400-27680200	Weak transcription	Fetal Kidney	kidney
9	chr7:27660600-27674800	Weak transcription	Psoas Muscle	Psoas
10	chr7:27660600-27701000	Weak transcription	Right Ventricle	heart
11	chr7:27660800-27675600	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
12	chr7:27660800-27676400	Weak transcription	HUES6 Cell Line	embryonic stem cell
13	chr7:27661000-27675000	Weak transcription	Skeletal Muscle Female	skeletal muscle
14	chr7:27661000-27675400	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
15	chr7:27661000-27679600	Weak transcription	HSMMtube	muscle
16	chr7:27661000-27680600	Weak transcription	HepG2	liver
17	chr7:27661000-27688000	Weak transcription	Stomach Smooth Muscle	stomach
18	chr7:27661200-27675200	Weak transcription	Duodenum Smooth Muscle	Duodenum
19	chr7:27661200-27694800	Weak transcription	Monocytes-CD14+_RO01746	blood
20	chr7:27661400-27675200	Weak transcription	Primary hematopoietic stem cells short term culture	blood
21	chr7:27661400-27688800	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
22	chr7:27661400-27700800	Weak transcription	Thymus	Thymus
23	chr7:27661600-27681000	Weak transcription	NHEK	skin
24	chr7:27661800-27675800	Weak transcription	Primary B cells from cord blood	blood
25	chr7:27661800-27680200	Weak transcription	Duodenum Mucosa	Duodenum
26	chr7:27661800-27681400	Weak transcription	Pancreas	Pancrea
27	chr7:27661800-27686400	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
28	chr7:27661800-27692200	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
29	chr7:27661800-27694400	Weak transcription	Lung	lung
30	chr7:27662000-27675200	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
31	chr7:27662400-27686800	Weak transcription	Rectal Mucosa Donor 31	rectum
32	chr7:27662600-27688200	Weak transcription	Primary B cells from peripheral blood	blood
33	chr7:27662800-27688000	Weak transcription	Primary hematopoietic stem cells	blood
34	chr7:27663200-27675000	Weak transcription	Primary T helper cells PMA-I stimulated	--
35	chr7:27664000-27675200	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
36	chr7:27664400-27680400	Weak transcription	NH-A	brain
37	chr7:27664600-27681400	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
38	chr7:27664800-27688200	Weak transcription	K562	blood
39	chr7:27665000-27680400	Weak transcription	NHDF-Ad	bronchial
40	chr7:27665000-27681000	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
41	chr7:27665000-27686000	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
42	chr7:27665600-27680000	Weak transcription	HUVEC	blood vessel
43	chr7:27665800-27675200	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
44	chr7:27666200-27683200	Weak transcription	Esophagus	oesophagus
45	chr7:27666600-27675800	Weak transcription	iPS-18 Cell Line	embryonic stem cell
46	chr7:27667000-27676000	Weak transcription	Adipose Nuclei	Adipose
47	chr7:27667000-27680800	Weak transcription	iPS-20b Cell Line	embryonic stem cell
48	chr7:27667200-27686000	Weak transcription	Fetal Muscle Trunk	muscle
49	chr7:27668400-27675000	Weak transcription	A549	lung
50	chr7:27668400-27687400	Weak transcription	Rectal Mucosa Donor 29	rectum

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links