Variant report

Variant	rs9352674
Chromosome Location	chr6:79603341-79603342
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 58 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:56)

rs_ID	r²[population]
rs1021988	0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10943611	0.83[AMR][1000 genomes];0.93[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs11547228	0.89[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs12110918	0.83[AMR][1000 genomes];0.89[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs1283320	0.82[AFR][1000 genomes];0.83[AMR][1000 genomes];0.96[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs1507148	0.96[EUR][1000 genomes]
rs1933238	0.83[AMR][1000 genomes];0.93[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs1963080	0.83[AFR][1000 genomes];0.94[AMR][1000 genomes];0.89[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs2013420	0.91[AMR][1000 genomes];0.91[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs2089416	0.94[AMR][1000 genomes];0.99[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs2135768	0.91[AFR][1000 genomes];0.94[AMR][1000 genomes];0.95[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs2135771	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2135772	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2321894	0.96[EUR][1000 genomes]
rs3812161	0.83[AMR][1000 genomes];0.89[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs4327648	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs55696019	0.83[AMR][1000 genomes];0.89[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs56769571	0.83[AMR][1000 genomes];0.91[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs60527133	0.83[AMR][1000 genomes];0.96[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs62424927	0.89[AFR][1000 genomes];0.97[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6454089	0.91[AFR][1000 genomes];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs66509445	0.83[AMR][1000 genomes];0.93[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs66537043	0.83[AMR][1000 genomes];0.89[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs66587298	0.83[AMR][1000 genomes];0.89[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs67073459	0.83[AMR][1000 genomes];0.93[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs67143444	0.83[AMR][1000 genomes];0.89[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs67192540	0.89[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs67221234	0.83[AMR][1000 genomes];0.93[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs67241845	0.83[AMR][1000 genomes];0.89[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs67354417	0.83[AMR][1000 genomes];0.89[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs67628258	0.83[AMR][1000 genomes];0.91[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs67763383	0.83[AMR][1000 genomes];0.89[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs67799776	0.83[AMR][1000 genomes];0.96[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs67815356	0.80[AMR][1000 genomes];0.93[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs67890480	0.83[AMR][1000 genomes];0.88[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs67903175	0.83[AMR][1000 genomes];0.89[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs68067309	0.83[AMR][1000 genomes];0.93[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs68099353	0.80[AMR][1000 genomes];0.91[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs6936109	0.86[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs72902902	0.80[AMR][1000 genomes];0.91[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs73464131	0.83[AMR][1000 genomes];0.93[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs73464167	0.83[AMR][1000 genomes];0.89[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs73466226	0.88[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs7767182	0.95[AFR][1000 genomes];0.94[AMR][1000 genomes];0.99[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs906319	0.92[EUR][1000 genomes]
rs906320	0.92[EUR][1000 genomes]
rs9341755	0.99[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs9343838	0.91[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs9343846	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9350789	0.88[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9352673	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9359355	0.95[AFR][1000 genomes];0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9359358	0.94[AMR][1000 genomes];0.99[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs9361468	0.95[AFR][1000 genomes];0.94[AMR][1000 genomes];0.99[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs9968921	0.83[AMR][1000 genomes];0.89[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs9969106	0.83[AMR][1000 genomes];0.89[EUR][1000 genomes];0.92[ASN][1000 genomes]

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	nsv1015352	chr6:79521820-79757024	Weak transcription Strong transcription Flanking Active TSS Enhancers ZNF genes & repeats Flanking Bivalent TSS/Enh Active TSS Genic enhancers Bivalent/Poised TSS Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	9 gene(s)	inside rSNPs	diseases
2	esv1839807	chr6:79532610-79606615	ZNF genes & repeats Flanking Active TSS Enhancers Weak transcription Active TSS Strong transcription Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region	5 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs9352674	IRAK1BP1	Cis_1M	lymphoblastoid	RTeQTL

Chromatin state (count:38 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:79578200-79608600	Weak transcription	Adipose Nuclei	Adipose
2	chr6:79578200-79608600	Weak transcription	Left Ventricle	heart
3	chr6:79578200-79613600	Weak transcription	HSMM	muscle
4	chr6:79578400-79613800	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
5	chr6:79578400-79619800	Weak transcription	Duodenum Mucosa	Duodenum
6	chr6:79578400-79620000	Weak transcription	Right Ventricle	heart
7	chr6:79578600-79604800	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
8	chr6:79578600-79612400	Weak transcription	Stomach Smooth Muscle	stomach
9	chr6:79578600-79618200	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
10	chr6:79578800-79608600	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
11	chr6:79578800-79613800	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
12	chr6:79582000-79608400	Weak transcription	Fetal Intestine Large	intestine
13	chr6:79584800-79608600	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
14	chr6:79585200-79619600	Weak transcription	Duodenum Smooth Muscle	Duodenum
15	chr6:79585200-79620200	Weak transcription	Fetal Lung	lung
16	chr6:79587600-79607600	Weak transcription	Dnd41	blood
17	chr6:79587600-79611200	Weak transcription	Brain Anterior Caudate	brain
18	chr6:79587800-79608400	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
19	chr6:79588000-79619800	Weak transcription	Fetal Brain Female	brain
20	chr6:79588200-79611800	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
21	chr6:79588200-79611800	Weak transcription	Pancreas	Pancrea
22	chr6:79588200-79612000	Weak transcription	Fetal Stomach	stomach
23	chr6:79588200-79616400	Weak transcription	Primary T cells from cord blood	blood
24	chr6:79589600-79618200	Weak transcription	Aorta	Aorta
25	chr6:79589600-79619800	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
26	chr6:79589800-79620200	Weak transcription	Fetal Brain Male	brain
27	chr6:79592600-79620200	Weak transcription	Rectal Mucosa Donor 29	rectum
28	chr6:79596200-79608600	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
29	chr6:79596800-79618600	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
30	chr6:79597000-79620000	Weak transcription	Fetal Kidney	kidney
31	chr6:79597400-79619800	Weak transcription	Ovary	ovary
32	chr6:79598000-79604000	Weak transcription	Fetal Heart	heart
33	chr6:79598400-79608600	Weak transcription	Breast Myoepithelial Primary Cells	Breast
34	chr6:79598800-79612000	Weak transcription	Fetal Intestine Small	intestine
35	chr6:79599400-79607600	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
36	chr6:79599400-79612200	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
37	chr6:79600200-79619600	Weak transcription	Sigmoid Colon	Sigmoid Colon
38	chr6:79603000-79607600	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links