Variant report

Variant	rs35885458
Chromosome Location	chr5:177579406-177579407
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

TF binding
region (count:0)
CpG islands
(count:0)
Chromatin interactive
region (count:9)
LncRNA
region (count:0)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

No data

(count:9 , 50 per page) page: 1

No.	Distal block	Cell Line	Cell type
1	chr5:177539791..177542194-chr5:177578689..177582162,4	K562	blood:
2	chr5:177564848..177566469-chr5:177578900..177581118,2	K562	blood:
3	chr5:177539043..177545979-chr5:177577141..177584026,12	K562	blood:
4	chr12:120730631..120732795-chr5:177578874..177580699,2	MCF-7	breast:
5	chr5:177578534..177581104-chr5:177631476..177634038,2	MCF-7	breast:
6	chr5:177556214..177559808-chr5:177575521..177582645,10	K562	blood:
7	chr5:177502594..177503991-chr5:177578124..177579458,23	MCF-7	breast:
8	chr5:177578478..177582579-chr5:177629428..177633237,12	MCF-7	breast:
9	chr5:177578943..177581189-chrX:48438491..48440007,2	MCF-7	breast:

No data

Variant related genes	Relation type
ENSG00000145916	Chromatin interaction
ENSG00000228343	Chromatin interaction
ENSG00000197451	Chromatin interaction
ENSG00000145911	Chromatin interaction
ENSG00000200795	Chromatin interaction

Extended variants
information (count: 24 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:17)

rs_ID	r²[population]
rs10035478	0.83[ASN][1000 genomes]
rs11948118	0.83[ASN][1000 genomes]
rs13185017	0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs13189047	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs13436876	0.83[ASN][1000 genomes]
rs34594900	0.92[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs35027513	0.91[ASN][1000 genomes]
rs35433113	0.80[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs36087128	0.80[ASN][1000 genomes]
rs3812074	0.80[ASN][1000 genomes]
rs3812075	0.82[ASN][1000 genomes]
rs3812079	0.82[ASN][1000 genomes]
rs4549545	0.92[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs4637566	0.83[ASN][1000 genomes]
rs62392212	0.92[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs6873523	0.82[AMR][1000 genomes];0.91[ASN][1000 genomes]
rs7447860	0.83[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:7 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv948342	chr5:177384542-178168737	Flanking Active TSS Enhancers Active TSS Bivalent Enhancer Strong transcription Weak transcription Bivalent/Poised TSS Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	141 gene(s)	inside rSNPs	diseases
2	nsv1021198	chr5:177386267-177611648	Enhancers Bivalent/Poised TSS Flanking Active TSS Genic enhancers Weak transcription Strong transcription Bivalent Enhancer Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	34 gene(s)	inside rSNPs	diseases
3	nsv1029398	chr5:177502106-178070654	Flanking Active TSS Enhancers Weak transcription Strong transcription Bivalent Enhancer Transcr. at gene 5' and 3' Genic enhancers ZNF genes & repeats Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	136 gene(s)	inside rSNPs	diseases
4	nsv1019404	chr5:177507080-177859089	Flanking Active TSS Enhancers Strong transcription Bivalent Enhancer Active TSS Weak transcription Genic enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	126 gene(s)	inside rSNPs	diseases
5	nsv883190	chr5:177532201-177620189	Flanking Active TSS Active TSS Bivalent Enhancer Weak transcription Enhancers Bivalent/Poised TSS Strong transcription Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Genic enhancers ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	29 gene(s)	inside rSNPs	diseases
6	nsv600394	chr5:177549491-177608195	Weak transcription Enhancers Strong transcription Genic enhancers Flanking Bivalent TSS/Enh Active TSS Flanking Active TSS Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	20 gene(s)	inside rSNPs	diseases
7	nsv1017664	chr5:177578194-177633116	Active TSS Enhancers Flanking Active TSS Weak transcription Strong transcription Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Bivalent TSS/Enh Genic enhancers Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	93 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:127 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr5:177559000-177580000	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
2	chr5:177559000-177580000	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
3	chr5:177559200-177579800	Weak transcription	Right Atrium	heart
4	chr5:177560200-177579600	Strong transcription	HUES64 Cell Line	embryonic stem cell
5	chr5:177560200-177579800	Strong transcription	HUES6 Cell Line	embryonic stem cell
6	chr5:177560800-177579600	Strong transcription	HUES48 Cell Line	embryonic stem cell
7	chr5:177561000-177579800	Strong transcription	H1 Cell Line	embryonic stem cell
8	chr5:177568800-177579600	Strong transcription	Primary hematopoietic stem cells short term culture	blood
9	chr5:177569000-177579600	Strong transcription	Osteobl	bone
10	chr5:177572600-177579800	Strong transcription	H9 Cell Line	embryonic stem cell
11	chr5:177572800-177579600	Strong transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
12	chr5:177576000-177580000	Weak transcription	Pancreatic Islets	Pancreatic Islet
13	chr5:177576200-177579800	Weak transcription	Fetal Kidney	kidney
14	chr5:177576800-177579800	Genic enhancers	K562	blood
15	chr5:177577200-177579800	Weak transcription	Stomach Mucosa	stomach
16	chr5:177577400-177579800	Weak transcription	Primary neutrophils fromperipheralblood	blood
17	chr5:177577800-177579600	Genic enhancers	Pancreas	Pancrea
18	chr5:177578000-177579600	Enhancers	Foreskin Melanocyte Primary Cells skin01	Skin
19	chr5:177578000-177579600	Weak transcription	Fetal Brain Male	brain
20	chr5:177578000-177579600	Weak transcription	Monocytes-CD14+_RO01746	blood
21	chr5:177578000-177579800	Genic enhancers	Fetal Adrenal Gland	Adrenal Gland
22	chr5:177578000-177580200	Weak transcription	Aorta	Aorta
23	chr5:177578200-177580000	Genic enhancers	Fetal Muscle Leg	muscle
24	chr5:177578400-177579600	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
25	chr5:177578400-177579600	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
26	chr5:177578400-177579600	Weak transcription	Muscle Satellite Cultured Cells	--
27	chr5:177578400-177579600	Weak transcription	Brain Cingulate Gyrus	brain
28	chr5:177578400-177579600	Weak transcription	Gastric	stomach
29	chr5:177578400-177579600	Weak transcription	HMEC	breast
30	chr5:177578400-177579600	Weak transcription	NH-A	brain
31	chr5:177578400-177579800	Weak transcription	Primary monocytes fromperipheralblood	blood
32	chr5:177578400-177579800	Genic enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
33	chr5:177578400-177579800	Genic enhancers	Brain Dorsolateral Prefrontal Cortex	brain
34	chr5:177578400-177580000	Weak transcription	ES-I3 Cell Line	embryonic stem cell
35	chr5:177578600-177579600	Genic enhancers	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
36	chr5:177578600-177579600	Genic enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
37	chr5:177578600-177579600	Enhancers	Adipose Nuclei	Adipose
38	chr5:177578600-177579800	Weak transcription	Colonic Mucosa	Colon
39	chr5:177578600-177579800	Weak transcription	Rectal Mucosa Donor 31	rectum
40	chr5:177578600-177579800	Weak transcription	HSMMtube	muscle
41	chr5:177578800-177579600	Weak transcription	iPS-18 Cell Line	embryonic stem cell
42	chr5:177578800-177579600	Strong transcription	Fetal Muscle Trunk	muscle
43	chr5:177578800-177579600	Weak transcription	Thymus	Thymus
44	chr5:177578800-177579800	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
45	chr5:177578800-177579800	Genic enhancers	Primary T cells from cord blood	blood
46	chr5:177578800-177579800	Transcr. at gene 5' and 3'	Foreskin Fibroblast Primary Cells skin01	Skin
47	chr5:177578800-177579800	Weak transcription	Fetal Lung	lung
48	chr5:177578800-177579800	Weak transcription	Lung	lung
49	chr5:177578800-177579800	Weak transcription	Ovary	ovary
50	chr5:177578800-177579800	Weak transcription	Psoas Muscle	Psoas

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links