Variant report

Variant	rs4919484
Chromosome Location	chr10:95509280-95509281
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr10:95501274..95503967-chr10:95507239..95509314,2	MCF-7	breast:
2	chr10:95507841..95511578-chr10:95514882..95519880,7	MCF-7	breast:
3	chr10:95505485..95509321-chr10:95520774..95525210,6	MCF-7	breast:

Variant related genes	Relation type
ENSG00000108231	Chromatin interaction

Extended variants
information (count: 8 )
Associated
traits (count: 5 )

rSNPs within LD-proxies of this variant (count:7)

rs_ID	r²[population]
rs10736078	0.88[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs10786136	0.96[CEU][hapmap];1.00[CHB][hapmap];0.83[JPT][hapmap];0.87[AMR][1000 genomes];0.96[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs10882326	0.96[CEU][hapmap];1.00[CHB][hapmap];0.90[JPT][hapmap];0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs4919491	0.96[CEU][hapmap];1.00[CHB][hapmap];0.90[JPT][hapmap];0.92[AMR][1000 genomes];0.98[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs873920	0.82[AFR][1000 genomes];0.93[AMR][1000 genomes];0.91[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs913047	0.93[AMR][1000 genomes];0.99[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs946553	0.96[CEU][hapmap];0.94[CHB][hapmap];0.90[JPT][hapmap];0.91[AMR][1000 genomes];0.91[EUR][1000 genomes];0.96[ASN][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	esv3346948	chr10:95421957-95532625	Strong transcription Weak transcription Enhancers Active TSS Bivalent Enhancer Flanking Active TSS Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	9 gene(s)	inside rSNPs	diseases

mRNA abundance (count:5)

SNP	Gene	Cis/trans	Tissue	Source
rs4919484	FRA10AC1	cis	Muscle Skeletal	GTEx
rs4919484	FRA10AC1	cis	Artery Tibial	GTEx
rs4919484	C10orf4	Cis_1M	lymphoblastoid	RTeQTL
rs4919484	FRA10AC1	cis	Nerve Tibial	GTEx
rs4919484	FRA10AC1	cis	Esophagus Muscularis	GTEx

Chromatin state (count:69 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr10:95503000-95511600	Weak transcription	Rectal Mucosa Donor 29	rectum
2	chr10:95505400-95511600	Weak transcription	Liver	Liver
3	chr10:95505800-95517600	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
4	chr10:95506400-95509400	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
5	chr10:95506400-95509600	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
6	chr10:95506600-95511800	Weak transcription	Stomach Mucosa	stomach
7	chr10:95506800-95510200	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
8	chr10:95506800-95511800	Weak transcription	Fetal Muscle Trunk	muscle
9	chr10:95507000-95510800	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
10	chr10:95507000-95511000	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
11	chr10:95507000-95511000	Weak transcription	Stomach Smooth Muscle	stomach
12	chr10:95507000-95511600	Weak transcription	Brain Substantia Nigra	brain
13	chr10:95507000-95511600	Weak transcription	A549	lung
14	chr10:95507200-95511800	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
15	chr10:95507600-95511800	Weak transcription	HSMMtube	muscle
16	chr10:95507800-95511800	Weak transcription	NH-A	brain
17	chr10:95508000-95509600	Enhancers	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
18	chr10:95508200-95509600	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
19	chr10:95508200-95509800	Enhancers	ES-I3 Cell Line	embryonic stem cell
20	chr10:95508200-95509800	Enhancers	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
21	chr10:95508200-95509800	Enhancers	Cortex derived primary cultured neurospheres	brain
22	chr10:95508200-95510000	Enhancers	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
23	chr10:95508200-95512800	Enhancers	HUES64 Cell Line	embryonic stem cell
24	chr10:95508200-95515000	Enhancers	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
25	chr10:95508400-95509400	Enhancers	H9 Cell Line	embryonic stem cell
26	chr10:95508400-95509400	Flanking Active TSS	iPS-18 Cell Line	embryonic stem cell
27	chr10:95508400-95509400	Enhancers	Brain Angular Gyrus	brain
28	chr10:95508400-95509400	Enhancers	Brain Anterior Caudate	brain
29	chr10:95508400-95509600	Enhancers	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
30	chr10:95508400-95509600	Enhancers	ES-UCSF4 Cell Line	embryonic stem cell
31	chr10:95508400-95509600	Enhancers	Ganglion Eminence derived primary cultured neurospheres	brain
32	chr10:95508400-95509600	Enhancers	Duodenum Smooth Muscle	Duodenum
33	chr10:95508400-95509600	Enhancers	Fetal Stomach	stomach
34	chr10:95508400-95509600	Enhancers	Osteobl	bone
35	chr10:95508400-95509800	Enhancers	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
36	chr10:95508400-95509800	Flanking Active TSS	iPS-20b Cell Line	embryonic stem cell
37	chr10:95508400-95511800	Enhancers	H1 Cell Line	embryonic stem cell
38	chr10:95508400-95512200	Enhancers	Fetal Intestine Large	intestine
39	chr10:95508400-95512200	Enhancers	Fetal Intestine Small	intestine
40	chr10:95508600-95509400	Enhancers	H9 Derived Neuron Cultured Cells	ES cell derived
41	chr10:95508600-95509400	Enhancers	Foreskin Melanocyte Primary Cells skin01	Skin
42	chr10:95508600-95509600	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
43	chr10:95508600-95509600	Enhancers	Placenta Amnion	Placenta Amnion
44	chr10:95508600-95509800	Enhancers	Colon Smooth Muscle	Colon
45	chr10:95508600-95509800	Enhancers	NHLF	lung
46	chr10:95508800-95509400	Enhancers	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
47	chr10:95508800-95509400	Enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
48	chr10:95508800-95509400	Enhancers	Right Atrium	heart
49	chr10:95508800-95509600	Enhancers	iPS DF 6.9 Cell Line	embryonic stem cell
50	chr10:95508800-95509600	Enhancers	Rectal Smooth Muscle	rectum

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links