Variant report

Variant	rs34104444
Chromosome Location	chr10:112645088-112645089
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Transcrition factor	Chromosome Location	Cell Line	Cell type	Cell Stage	Matched TF binding sites
1	POLR2A	chr10:112645050-112645272	GM12878	blood:	n/a	n/a

Variant related genes	Relation type
PDCD4	TF binding region

Extended variants
information (count: 59 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:55)

rs_ID	r²[population]
rs11195368	0.81[AFR][1000 genomes];1.00[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11195373	0.89[AFR][1000 genomes];1.00[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11195376	0.91[AFR][1000 genomes];0.82[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11195409	0.87[AFR][1000 genomes];0.89[EUR][1000 genomes]
rs11592186	0.94[AFR][1000 genomes];0.82[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs11592376	1.00[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11593462	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11593479	0.92[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs11593592	0.96[AFR][1000 genomes];0.82[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11593866	0.89[EUR][1000 genomes]
rs11597120	1.00[EUR][1000 genomes]
rs11597460	0.92[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs11597928	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11812232	0.87[AFR][1000 genomes];0.89[EUR][1000 genomes]
rs11812855	1.00[EUR][1000 genomes]
rs11813262	0.92[AFR][1000 genomes];0.82[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11813593	0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11814418	0.92[AFR][1000 genomes];0.94[EUR][1000 genomes]
rs11814686	0.92[AFR][1000 genomes];0.82[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11816033	0.92[AFR][1000 genomes];0.94[EUR][1000 genomes]
rs11816247	1.00[EUR][1000 genomes]
rs11816269	0.92[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs11816396	0.92[AFR][1000 genomes];0.82[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs11818060	1.00[EUR][1000 genomes]
rs11818747	1.00[EUR][1000 genomes]
rs11818761	0.86[AFR][1000 genomes];0.82[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs11818771	0.94[AFR][1000 genomes];0.82[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs11818869	1.00[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12781566	1.00[ASN][1000 genomes]
rs1322997	0.92[EUR][1000 genomes]
rs1327556	0.83[AFR][1000 genomes];0.82[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs1535559	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17128189	1.00[EUR][1000 genomes]
rs1885796	0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs55647014	0.95[EUR][1000 genomes]
rs55858908	0.87[AFR][1000 genomes];1.00[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs56237211	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs60633872	0.91[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs60681723	0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs60877808	0.91[AMR][1000 genomes];0.89[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs61469604	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6585018	0.92[EUR][1000 genomes]
rs6585020	0.95[EUR][1000 genomes]
rs7081726	1.00[EUR][1000 genomes]
rs74156303	1.00[ASN][1000 genomes]
rs74156304	0.91[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs74156305	0.91[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs74156307	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs74156308	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs74156309	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs74156310	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs74156311	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs74156320	0.96[AFR][1000 genomes];0.82[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs74156323	0.92[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs7923004	1.00[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:4 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1045608	chr10:112524813-112677557	Flanking Active TSS Enhancers Weak transcription Strong transcription Active TSS Genic enhancers Bivalent Enhancer Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	26 gene(s)	inside rSNPs	diseases
2	nsv1041758	chr10:112552897-112677557	Enhancers Weak transcription Strong transcription Flanking Active TSS Active TSS Genic enhancers Transcr. at gene 5' and 3' Bivalent Enhancer ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	23 gene(s)	inside rSNPs	diseases
3	nsv1051566	chr10:112580049-112730573	Weak transcription Enhancers Active TSS Flanking Active TSS Strong transcription Flanking Bivalent TSS/Enh Genic enhancers Bivalent/Poised TSS ZNF genes & repeats Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	39 gene(s)	inside rSNPs	diseases
4	nsv1035602	chr10:112636053-112781413	Weak transcription Enhancers Strong transcription Genic enhancers Flanking Active TSS Active TSS Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	28 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:120 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr10:112632800-112678000	Weak transcription	Lung	lung
2	chr10:112632800-112678200	Weak transcription	Spleen	Spleen
3	chr10:112633200-112656000	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
4	chr10:112633200-112656800	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
5	chr10:112633400-112662000	Weak transcription	H1 Cell Line	embryonic stem cell
6	chr10:112633600-112653800	Weak transcription	iPS-20b Cell Line	embryonic stem cell
7	chr10:112633600-112655200	Weak transcription	iPS-18 Cell Line	embryonic stem cell
8	chr10:112633800-112659800	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
9	chr10:112634000-112647000	Weak transcription	Brain Inferior Temporal Lobe	brain
10	chr10:112634000-112649400	Weak transcription	Brain Hippocampus Middle	brain
11	chr10:112634000-112655000	Weak transcription	Brain Cingulate Gyrus	brain
12	chr10:112634000-112655800	Weak transcription	Psoas Muscle	Psoas
13	chr10:112634000-112656000	Weak transcription	Right Ventricle	heart
14	chr10:112634000-112662400	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
15	chr10:112634200-112646600	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
16	chr10:112634200-112655800	Weak transcription	Skeletal Muscle Male	skeletal muscle
17	chr10:112634600-112656600	Weak transcription	NHEK	skin
18	chr10:112634800-112646000	Weak transcription	Fetal Brain Male	brain
19	chr10:112634800-112661800	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
20	chr10:112634800-112677400	Weak transcription	HUVEC	blood vessel
21	chr10:112635400-112657000	Strong transcription	HSMM	muscle
22	chr10:112635400-112661800	Strong transcription	Placenta	Placenta
23	chr10:112635600-112660600	Strong transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
24	chr10:112635600-112662200	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
25	chr10:112635600-112663400	Strong transcription	Primary monocytes fromperipheralblood	blood
26	chr10:112635800-112647800	Genic enhancers	Primary T helper cells fromperipheralblood	blood
27	chr10:112635800-112662200	Strong transcription	H9 Derived Neuron Cultured Cells	ES cell derived
28	chr10:112636000-112652000	Strong transcription	Fetal Intestine Large	intestine
29	chr10:112636000-112664400	Strong transcription	Fetal Thymus	thymus
30	chr10:112636200-112656200	Strong transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
31	chr10:112636400-112664800	Strong transcription	Monocytes-CD14+_RO01746	blood
32	chr10:112637200-112646400	Strong transcription	Rectal Mucosa Donor 29	rectum
33	chr10:112637400-112656200	Strong transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
34	chr10:112637600-112651000	Strong transcription	Primary hematopoietic stem cells	blood
35	chr10:112638000-112648400	Strong transcription	NHDF-Ad	bronchial
36	chr10:112638200-112650600	Strong transcription	Adipose Nuclei	Adipose
37	chr10:112638800-112645800	Weak transcription	NH-A	brain
38	chr10:112639200-112661000	Strong transcription	Primary neutrophils fromperipheralblood	blood
39	chr10:112639600-112647800	Strong transcription	Dnd41	blood
40	chr10:112640200-112646000	Weak transcription	Fetal Brain Female	brain
41	chr10:112640600-112646000	Weak transcription	Colon Smooth Muscle	Colon
42	chr10:112640800-112645200	Strong transcription	HUES64 Cell Line	embryonic stem cell
43	chr10:112640800-112647800	Strong transcription	Skeletal Muscle Female	skeletal muscle
44	chr10:112641000-112645800	Strong transcription	Brain Substantia Nigra	brain
45	chr10:112641000-112647200	Strong transcription	HSMMtube	muscle
46	chr10:112641000-112648400	Strong transcription	Hela-S3	cervix
47	chr10:112641800-112645600	Strong transcription	Liver	Liver
48	chr10:112641800-112646000	Strong transcription	Rectal Mucosa Donor 31	rectum
49	chr10:112641800-112648000	Genic enhancers	Primary T helper memory cells from peripheral blood 2	blood
50	chr10:112641800-112655200	Weak transcription	Brain Angular Gyrus	brain

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links