Variant report

Variant	rs10247441
Chromosome Location	chr7:107811473-107811474
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr7:107803801..107808052-chr7:107808628..107811688,3	K562	blood:
2	chr7:107811006..107813226-chr7:108095607..108097846,2	MCF-7	breast:
3	chr7:107809646..107812206-chr7:107815775..107817428,2	K562	blood:
4	chr7:107805156..107808052-chr7:107808628..107811838,4	K562	blood:

Variant related genes	Relation type
ENSG00000091129	Chromatin interaction

Extended variants
information (count: 47 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:40)

rs_ID	r²[population]
rs10215090	1.00[AMR][1000 genomes]
rs10215098	1.00[AMR][1000 genomes]
rs10216147	1.00[AMR][1000 genomes]
rs10225239	0.84[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs10227650	1.00[ASW][hapmap];1.00[LWK][hapmap];1.00[MKK][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs10234410	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs10235073	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs10251655	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs10252718	0.84[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs10255286	1.00[AMR][1000 genomes]
rs10256475	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs10262726	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs10263709	1.00[AMR][1000 genomes]
rs10265378	1.00[LWK][hapmap];1.00[MKK][hapmap];0.85[YRI][hapmap];0.83[AFR][1000 genomes]
rs10266877	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs10271382	1.00[AMR][1000 genomes]
rs10274645	1.00[YRI][hapmap];1.00[AFR][1000 genomes]
rs10275960	1.00[AMR][1000 genomes]
rs10279100	1.00[AMR][1000 genomes]
rs10279790	0.85[YRI][hapmap];0.91[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs17155026	1.00[MEX][hapmap]
rs28373916	0.84[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs28418445	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs28565878	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs28573201	0.84[AFR][1000 genomes]
rs28578635	0.84[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs28584470	0.84[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs28641825	0.84[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs34682332	1.00[AMR][1000 genomes]
rs41338849	1.00[MKK][hapmap];0.85[YRI][hapmap];0.84[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs55945586	1.00[AMR][1000 genomes]
rs56325000	1.00[AMR][1000 genomes]
rs58732508	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs59796283	1.00[AMR][1000 genomes]
rs60225475	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs6945854	1.00[MEX][hapmap]
rs7784765	1.00[MEX][hapmap]
rs7794978	1.00[MEX][hapmap]
rs7810261	1.00[MEX][hapmap]
rs9987047	1.00[AFR][1000 genomes];1.00[AMR][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	nsv1033979	chr7:107003734-107877761	Strong transcription Enhancers Weak transcription Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Genic enhancers Bivalent/Poised TSS Flanking Active TSS Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	62 gene(s)	inside rSNPs	diseases
2	esv3348839	chr7:107377311-108286538	Weak transcription Enhancers Flanking Active TSS Genic enhancers ZNF genes & repeats Strong transcription Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	91 gene(s)	inside rSNPs	diseases
3	nsv949344	chr7:107396502-107987085	Weak transcription Enhancers Strong transcription Active TSS Flanking Active TSS Genic enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	25 gene(s)	inside rSNPs	diseases
4	nsv831089	chr7:107687618-107877240	Enhancers Weak transcription Strong transcription Flanking Active TSS Genic enhancers Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region	8 gene(s)	inside rSNPs	diseases
5	nsv831090	chr7:107786650-108011196	Enhancers Weak transcription Active TSS ZNF genes & repeats Flanking Active TSS Strong transcription Transcr. at gene 5' and 3' Bivalent Enhancer Genic enhancers Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region	7 gene(s)	inside rSNPs	diseases
6	nsv888941	chr7:107796150-107863395	ZNF genes & repeats Weak transcription Enhancers Strong transcription Genic enhancers Active TSS Flanking Active TSS Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region	5 gene(s)	inside rSNPs	diseases
7	nsv1030222	chr7:107809927-107844916	Weak transcription Strong transcription Enhancers ZNF genes & repeats Active TSS Genic enhancers Flanking Active TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region	4 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs10247441	CD3D	trans	lymphoblastoid	seeQTL

Chromatin state (count:23 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr7:107786800-107811800	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
2	chr7:107786800-107818400	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
3	chr7:107786800-107819000	Weak transcription	Brain Angular Gyrus	brain
4	chr7:107786800-107857800	Weak transcription	Brain Cingulate Gyrus	brain
5	chr7:107787000-107818800	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
6	chr7:107787600-107818800	Weak transcription	Brain Anterior Caudate	brain
7	chr7:107787800-107844200	Weak transcription	Brain Germinal Matrix	brain
8	chr7:107790400-107816800	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
9	chr7:107791000-107824600	Weak transcription	HUVEC	blood vessel
10	chr7:107800200-107815200	Weak transcription	A549	lung
11	chr7:107805800-107818800	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
12	chr7:107808200-107820000	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
13	chr7:107808600-107818400	Weak transcription	Cortex derived primary cultured neurospheres	brain
14	chr7:107808600-107818400	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
15	chr7:107810600-107811800	Enhancers	HUES6 Cell Line	embryonic stem cell
16	chr7:107811000-107811600	Enhancers	iPS-20b Cell Line	embryonic stem cell
17	chr7:107811000-107811800	Enhancers	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
18	chr7:107811000-107811800	Enhancers	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
19	chr7:107811000-107812000	Enhancers	iPS-15b Cell Line	embryonic stem cell
20	chr7:107811000-107812000	Enhancers	iPS DF 6.9 Cell Line	embryonic stem cell
21	chr7:107811000-107812400	Strong transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
22	chr7:107811200-107811600	Weak transcription	iPS-18 Cell Line	embryonic stem cell
23	chr7:107811200-107820000	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links