Variant report

Variant	rs10819641
Chromosome Location	chr9:101936231-101936232
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr9:101934883..101936610-chr9:102021893..102023523,2	K562	blood:
2	chr9:101932897..101935803-chr9:101935996..101937502,2	MCF-7	breast:
3	chr9:101932774..101936313-chr9:101937210..101940829,5	K562	blood:
4	chr9:101933720..101936495-chr9:101943717..101946292,3	MCF-7	breast:

Variant related genes	Relation type
ENSG00000227269	Chromatin interaction

Extended variants
information (count: 32 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:30)

rs_ID	r²[population]
rs10114715	1.00[CEU][hapmap];0.95[JPT][hapmap];0.87[YRI][hapmap];0.82[AFR][1000 genomes];0.91[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs10121020	0.92[ASW][hapmap];0.91[YRI][hapmap]
rs10988738	1.00[YRI][hapmap]
rs10988740	1.00[CEU][hapmap];0.86[CHB][hapmap];0.95[JPT][hapmap];0.82[AMR][1000 genomes];0.87[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs10988742	0.85[ASW][hapmap];1.00[YRI][hapmap]
rs10988743	0.82[CEU][hapmap];0.89[CHB][hapmap];0.90[JPT][hapmap];0.90[YRI][hapmap];0.80[AMR][1000 genomes];0.91[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs10988744	1.00[CEU][hapmap];0.95[CHB][hapmap];0.91[JPT][hapmap];0.83[YRI][hapmap];0.84[AMR][1000 genomes];0.91[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs10988745	1.00[CEU][hapmap];0.87[YRI][hapmap]
rs10988746	0.93[ASW][hapmap];1.00[CEU][hapmap];0.95[CHB][hapmap];0.93[CHD][hapmap];0.94[GIH][hapmap];0.91[JPT][hapmap];0.93[MEX][hapmap];0.88[TSI][hapmap];0.87[EUR][1000 genomes]
rs10988749	1.00[CEU][hapmap]
rs12336513	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.89[GIH][hapmap];1.00[JPT][hapmap];0.89[LWK][hapmap];0.89[MKK][hapmap];0.87[YRI][hapmap];0.86[AFR][1000 genomes];0.93[AMR][1000 genomes];0.91[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs12336759	1.00[YRI][hapmap]
rs12336790	1.00[CEU][hapmap];1.00[CHB][hapmap];0.90[JPT][hapmap];0.84[AFR][1000 genomes];0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12340839	1.00[CEU][hapmap];0.95[YRI][hapmap]
rs12340952	0.87[YRI][hapmap]
rs12345762	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.99[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13440104	1.00[CEU][hapmap];0.95[CHB][hapmap];0.91[JPT][hapmap];0.95[YRI][hapmap];0.87[EUR][1000 genomes]
rs16905728	1.00[YRI][hapmap]
rs16918352	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.83[YRI][hapmap];0.87[AFR][1000 genomes];0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs16918354	0.86[YRI][hapmap]
rs2221383	0.85[ASW][hapmap];1.00[YRI][hapmap]
rs57839076	0.84[AFR][1000 genomes]
rs59091994	0.87[AMR][1000 genomes];0.91[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs6478976	0.85[ASW][hapmap];1.00[CEU][hapmap];0.95[YRI][hapmap]
rs7022989	0.86[JPT][hapmap]
rs7025181	0.82[YRI][hapmap]
rs7035537	0.85[YRI][hapmap]
rs7872043	1.00[CEU][hapmap];0.95[CHB][hapmap];0.91[JPT][hapmap];0.83[YRI][hapmap];0.81[AMR][1000 genomes];0.91[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs912248	1.00[CEU][hapmap];0.95[CHB][hapmap];0.91[JPT][hapmap];0.91[YRI][hapmap];0.87[EUR][1000 genomes]
rs912249	1.00[CEU][hapmap];0.87[EUR][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	nsv893619	chr9:101835165-101936231	Enhancers Weak transcription Active TSS Strong transcription Flanking Active TSS Genic enhancers Bivalent Enhancer Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region miRNA target site	13 gene(s)	inside rSNPs	diseases
2	nsv831666	chr9:101874985-102018690	Weak transcription Flanking Active TSS Enhancers Genic enhancers Strong transcription Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	20 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:40 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:101930400-101936600	Enhancers	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
2	chr9:101931400-101937000	Enhancers	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
3	chr9:101931600-101947000	Weak transcription	Right Atrium	heart
4	chr9:101932200-101937000	Enhancers	Fetal Intestine Small	intestine
5	chr9:101932200-101940200	Enhancers	Fetal Intestine Large	intestine
6	chr9:101932800-101936600	Enhancers	iPS-18 Cell Line	embryonic stem cell
7	chr9:101933000-101936800	Enhancers	H9 Derived Neuron Cultured Cells	ES cell derived
8	chr9:101934600-101936600	Enhancers	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
9	chr9:101935000-101936400	Enhancers	HUES64 Cell Line	embryonic stem cell
10	chr9:101935000-101936400	Bivalent Enhancer	IMR90 fetal lung fibroblasts Cell Line	lung
11	chr9:101935200-101936600	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
12	chr9:101935200-101937000	Enhancers	HUES48 Cell Line	embryonic stem cell
13	chr9:101935200-101939000	Weak transcription	HUES6 Cell Line	embryonic stem cell
14	chr9:101935200-101941000	Weak transcription	Fetal Muscle Leg	muscle
15	chr9:101935200-101947200	Weak transcription	Gastric	stomach
16	chr9:101935400-101937800	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
17	chr9:101935600-101936400	Weak transcription	iPS-15b Cell Line	embryonic stem cell
18	chr9:101935600-101936400	Enhancers	ES-UCSF4 Cell Line	embryonic stem cell
19	chr9:101935800-101936800	Enhancers	Ganglion Eminence derived primary cultured neurospheres	brain
20	chr9:101935800-101936800	Flanking Active TSS	HepG2	liver
21	chr9:101935800-101937000	Enhancers	Foreskin Melanocyte Primary Cells skin01	Skin
22	chr9:101935800-101937000	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
23	chr9:101935800-101937000	Enhancers	Brain Hippocampus Middle	brain
24	chr9:101935800-101939200	Weak transcription	H1 Cell Line	embryonic stem cell
25	chr9:101936000-101936400	Enhancers	Breast Myoepithelial Primary Cells	Breast
26	chr9:101936000-101936400	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
27	chr9:101936000-101936800	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
28	chr9:101936000-101936800	Enhancers	Brain Cingulate Gyrus	brain
29	chr9:101936000-101936800	Enhancers	HMEC	breast
30	chr9:101936000-101937000	Enhancers	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
31	chr9:101936000-101937000	Enhancers	Cortex derived primary cultured neurospheres	brain
32	chr9:101936000-101937000	Enhancers	Brain Angular Gyrus	brain
33	chr9:101936000-101937000	Enhancers	Brain Substantia Nigra	brain
34	chr9:101936200-101936400	Enhancers	iPS DF 19.11 Cell Line	embryonic stem cell
35	chr9:101936200-101936400	Flanking Active TSS	GM12878-XiMat	blood
36	chr9:101936200-101936600	Enhancers	iPS-20b Cell Line	embryonic stem cell
37	chr9:101936200-101936600	Bivalent Enhancer	Stomach Mucosa	stomach
38	chr9:101936200-101937000	Enhancers	Brain Anterior Caudate	brain
39	chr9:101936200-101937000	Enhancers	Brain Inferior Temporal Lobe	brain
40	chr9:101936200-101937200	Enhancers	Fetal Adrenal Gland	Adrenal Gland

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