Variant report

Variant	rs10878049
Chromosome Location	chr12:40457964-40457965
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr12:40455812..40458889-chr12:40497320..40500234,3	K562	blood:

Variant related genes	Relation type
ENSG00000151229	Chromatin interaction

Extended variants
information (count: 50 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:49)

rs_ID	r²[population]
rs1005956	0.91[JPT][hapmap]
rs10506140	0.92[JPT][hapmap]
rs10747971	0.84[JPT][hapmap]
rs10784338	0.83[CHB][hapmap];0.92[JPT][hapmap];0.82[ASN][1000 genomes]
rs10784353	0.86[CEU][hapmap];0.89[CHB][hapmap];0.92[JPT][hapmap];0.85[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs10784356	0.89[CEU][hapmap];0.89[CHB][hapmap];0.92[JPT][hapmap];0.89[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs10784359	0.82[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.91[YRI][hapmap];0.82[AFR][1000 genomes];0.96[AMR][1000 genomes];0.82[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10784369	0.89[CEU][hapmap];0.82[CHB][hapmap];0.92[JPT][hapmap];0.90[EUR][1000 genomes]
rs10877891	0.83[CHB][hapmap];1.00[JPT][hapmap]
rs10877990	0.92[JPT][hapmap];0.83[ASN][1000 genomes]
rs10878031	0.86[CEU][hapmap];0.83[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs10878089	0.92[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.88[AMR][1000 genomes];0.92[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs11174609	0.82[CHB][hapmap];1.00[JPT][hapmap]
rs11174702	0.85[ASN][1000 genomes]
rs11174809	0.95[ASN][1000 genomes]
rs11174812	0.96[ASN][1000 genomes]
rs11174813	0.95[ASN][1000 genomes]
rs11175024	0.92[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.88[AMR][1000 genomes];0.92[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs12813098	0.96[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.92[AMR][1000 genomes];0.99[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs12823555	0.89[CEU][hapmap];1.00[JPT][hapmap];0.92[AMR][1000 genomes];0.99[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs1482281	0.85[JPT][hapmap]
rs1586038	0.85[CEU][hapmap];0.89[CHB][hapmap];0.92[JPT][hapmap];0.86[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs1600866	0.89[CEU][hapmap];0.84[CHB][hapmap];0.92[JPT][hapmap];0.91[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs1813122	0.85[JPT][hapmap]
rs2128275	0.94[ASN][1000 genomes]
rs2128277	0.89[CHB][hapmap];1.00[JPT][hapmap];0.81[ASN][1000 genomes]
rs2404352	0.89[CEU][hapmap];0.84[CHB][hapmap];0.92[JPT][hapmap];0.91[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs2896825	0.89[CHB][hapmap];1.00[JPT][hapmap];0.96[ASN][1000 genomes]
rs2896905	0.89[CEU][hapmap];0.94[CHB][hapmap];0.92[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs3925535	0.93[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.88[AMR][1000 genomes];0.92[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs4625545	0.94[CHB][hapmap];0.85[JPT][hapmap];0.94[ASN][1000 genomes]
rs4767960	0.92[AMR][1000 genomes];0.99[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs4768200	0.90[JPT][hapmap]
rs4768204	0.91[JPT][hapmap]
rs530602	0.83[CHB][hapmap];1.00[JPT][hapmap]
rs550669	0.85[JPT][hapmap]
rs555740	0.84[JPT][hapmap]
rs6581504	0.96[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.90[AMR][1000 genomes];0.95[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs6650226	0.85[JPT][hapmap]
rs7139216	0.92[ASN][1000 genomes]
rs716268	0.82[CHB][hapmap];1.00[JPT][hapmap];0.92[AMR][1000 genomes];0.97[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs7313209	0.89[CHB][hapmap];1.00[JPT][hapmap];0.94[ASN][1000 genomes]
rs7313231	0.94[CHB][hapmap];1.00[JPT][hapmap];0.94[ASN][1000 genomes]
rs7953129	0.83[CHB][hapmap];0.92[JPT][hapmap];0.84[ASN][1000 genomes]
rs7959498	0.94[CHB][hapmap];1.00[JPT][hapmap];0.94[ASN][1000 genomes]
rs7960662	0.89[CEU][hapmap];0.92[JPT][hapmap];0.90[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs7964150	0.84[JPT][hapmap]
rs7970812	0.94[CHB][hapmap];0.85[JPT][hapmap];0.83[ASN][1000 genomes]
rs9669240	0.93[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.88[AMR][1000 genomes];0.92[EUR][1000 genomes];0.94[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	nsv558596	chr12:40413698-40591117	Active TSS Flanking Active TSS Bivalent Enhancer Enhancers Weak transcription Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent/Poised TSS Strong transcription Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	14 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:15 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr12:40452000-40458600	Enhancers	Cortex derived primary cultured neurospheres	brain
2	chr12:40452800-40460000	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
3	chr12:40453400-40459600	Weak transcription	Rectal Mucosa Donor 31	rectum
4	chr12:40453600-40459400	Weak transcription	Sigmoid Colon	Sigmoid Colon
5	chr12:40453800-40487400	Weak transcription	Left Ventricle	heart
6	chr12:40456000-40459400	Weak transcription	Rectal Smooth Muscle	rectum
7	chr12:40457000-40458000	Enhancers	H9 Derived Neuron Cultured Cells	ES cell derived
8	chr12:40457000-40458000	Enhancers	HMEC	breast
9	chr12:40457200-40459600	Weak transcription	Colon Smooth Muscle	Colon
10	chr12:40457400-40458000	Enhancers	Psoas Muscle	Psoas
11	chr12:40457600-40458000	Enhancers	Right Atrium	heart
12	chr12:40457600-40463200	Weak transcription	Stomach Smooth Muscle	stomach
13	chr12:40457600-40471600	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
14	chr12:40457800-40458600	Enhancers	Ganglion Eminence derived primary cultured neurospheres	brain
15	chr12:40457800-40459600	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell

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