Variant report

Variant	rs10807437
Chromosome Location	chr6:13414584-13414585
allele	A/C
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr6:13413198..13414739-chr6:13489299..13490913,2	MCF-7	breast:
2	chr6:13408702..13411029-chr6:13413155..13415071,2	MCF-7	breast:
3	chr6:13412824..13415397-chr6:13486120..13488724,2	MCF-7	breast:
4	chr6:13396704..13399515-chr6:13413657..13416189,2	K562	blood:
5	chr6:13414416..13414955-chr6:13538016..13538705,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000145990	Chromatin interaction
ENSG00000237786	Chromatin interaction
ENSG00000187461	Chromatin interaction

Extended variants
information (count: 39 )
Associated
traits (count: 2 )

rSNPs within LD-proxies of this variant (count:35)

rs_ID	r²[population]
rs11753720	0.92[AMR][1000 genomes];0.90[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs11754291	0.86[AMR][1000 genomes];0.98[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs11758233	0.81[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1345031	0.81[ASN][1000 genomes]
rs1345032	0.82[ASN][1000 genomes]
rs1837701	0.87[AMR][1000 genomes];0.89[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs2119483	1.00[CEU][hapmap];0.95[CHB][hapmap];0.92[CHD][hapmap];0.84[GIH][hapmap];0.95[JPT][hapmap];1.00[MEX][hapmap];0.97[TSI][hapmap];0.87[AMR][1000 genomes];0.91[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs2327673	0.83[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs4145562	1.00[CEU][hapmap];0.94[TSI][hapmap];0.90[EUR][1000 genomes]
rs4715251	0.80[CHD][hapmap]
rs478630	0.91[CHB][hapmap];0.82[CHD][hapmap]
rs478804	0.91[CHB][hapmap];0.82[CHD][hapmap]
rs480648	0.91[CHB][hapmap];0.82[CHD][hapmap]
rs485804	0.91[CHB][hapmap];0.90[JPT][hapmap];0.82[ASN][1000 genomes]
rs487607	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.95[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs490443	0.82[ASN][1000 genomes]
rs494026	0.81[AMR][1000 genomes];0.87[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs500197	0.86[CHB][hapmap];0.86[JPT][hapmap]
rs500293	0.91[CHB][hapmap]
rs519890	0.91[CHB][hapmap];0.87[CHD][hapmap];0.83[JPT][hapmap];0.82[ASN][1000 genomes]
rs523221	0.87[AMR][1000 genomes];0.90[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs536916	0.85[CHB][hapmap];0.85[JPT][hapmap]
rs536998	0.86[CHB][hapmap];0.86[CHD][hapmap];0.86[JPT][hapmap]
rs550403	0.81[ASN][1000 genomes]
rs564361	0.88[CHB][hapmap];0.80[JPT][hapmap]
rs565013	1.00[CEU][hapmap];0.95[CHB][hapmap];0.89[CHD][hapmap];1.00[GIH][hapmap];0.95[JPT][hapmap];1.00[MEX][hapmap];0.97[TSI][hapmap];0.87[AMR][1000 genomes];0.90[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs62385763	0.90[EUR][1000 genomes]
rs62386725	0.92[AMR][1000 genomes];0.88[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs62386727	0.93[AMR][1000 genomes];0.91[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs7742086	1.00[CEU][hapmap];1.00[CHB][hapmap];0.89[JPT][hapmap];0.86[AMR][1000 genomes];0.87[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs9296672	0.95[CEU][hapmap];0.82[GIH][hapmap];0.94[TSI][hapmap];0.90[EUR][1000 genomes]
rs935061	0.90[EUR][1000 genomes]
rs9357720	1.00[CEU][hapmap];0.95[CHB][hapmap];0.92[CHD][hapmap];0.87[GIH][hapmap];0.95[JPT][hapmap];1.00[MEX][hapmap];0.97[TSI][hapmap];0.86[AMR][1000 genomes];0.91[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs9463764	1.00[CEU][hapmap];0.90[EUR][1000 genomes]
rs9474117	1.00[CEU][hapmap];1.00[CHB][hapmap];0.84[CHD][hapmap];0.93[GIH][hapmap];0.86[JPT][hapmap];0.94[MEX][hapmap];0.94[TSI][hapmap];0.83[AMR][1000 genomes];0.87[EUR][1000 genomes];0.83[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:4 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv532021	chr6:13232627-13805381	Active TSS Genic enhancers Strong transcription Enhancers Flanking Active TSS Weak transcription Bivalent Enhancer Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	74 gene(s)	inside rSNPs	diseases
2	nsv1028533	chr6:13239059-13484814	Enhancers Strong transcription Weak transcription ZNF genes & repeats Active TSS Flanking Active TSS Genic enhancers Bivalent Enhancer Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	23 gene(s)	inside rSNPs	diseases
3	nsv538136	chr6:13239059-13484814	Strong transcription Weak transcription Enhancers Bivalent Enhancer Transcr. at gene 5' and 3' Flanking Active TSS Genic enhancers ZNF genes & repeats Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	23 gene(s)	inside rSNPs	diseases
4	nsv1034016	chr6:13248122-13418225	Enhancers Flanking Active TSS Strong transcription Weak transcription Genic enhancers Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	22 gene(s)	inside rSNPs	diseases

mRNA abundance (count:2)

SNP	Gene	Cis/trans	Tissue	Source
rs10807437	GFOD1	cis	cerebellum	SCAN
rs10807437	C6orf114	cis	cerebellum	SCAN

Chromatin state (count:74 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:13401800-13419000	Weak transcription	Primary B cells from peripheral blood	blood
2	chr6:13405000-13418400	Weak transcription	Primary hematopoietic stem cells	blood
3	chr6:13405000-13421800	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
4	chr6:13408600-13414600	Weak transcription	NHEK	skin
5	chr6:13408600-13415800	Enhancers	Liver	Liver
6	chr6:13408600-13422600	Weak transcription	HSMM	muscle
7	chr6:13408800-13415200	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
8	chr6:13408800-13419400	Weak transcription	Primary B cells from cord blood	blood
9	chr6:13408800-13420200	Weak transcription	Sigmoid Colon	Sigmoid Colon
10	chr6:13408800-13423000	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
11	chr6:13409200-13414600	Weak transcription	Hela-S3	cervix
12	chr6:13409600-13415400	Enhancers	Brain Angular Gyrus	brain
13	chr6:13410000-13415000	Enhancers	Primary monocytes fromperipheralblood	blood
14	chr6:13410200-13415400	Enhancers	Brain Hippocampus Middle	brain
15	chr6:13410200-13415800	Enhancers	Brain Dorsolateral Prefrontal Cortex	brain
16	chr6:13410400-13416000	Enhancers	Brain Cingulate Gyrus	brain
17	chr6:13410400-13416400	Enhancers	Right Atrium	heart
18	chr6:13410600-13415600	Enhancers	Primary Natural Killer cells fromperipheralblood	blood
19	chr6:13410800-13416000	Enhancers	Brain Inferior Temporal Lobe	brain
20	chr6:13411000-13415800	Enhancers	Psoas Muscle	Psoas
21	chr6:13411000-13415800	Weak transcription	GM12878-XiMat	blood
22	chr6:13411200-13415200	Enhancers	Adipose Nuclei	Adipose
23	chr6:13411400-13415600	Enhancers	Pancreas	Pancrea
24	chr6:13411400-13416200	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
25	chr6:13411400-13419600	Weak transcription	Fetal Thymus	thymus
26	chr6:13411400-13421800	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
27	chr6:13411600-13424200	Enhancers	Right Ventricle	heart
28	chr6:13412200-13419000	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
29	chr6:13412400-13415400	Enhancers	Fetal Lung	lung
30	chr6:13412400-13415800	Enhancers	Spleen	Spleen
31	chr6:13412600-13414800	Enhancers	HSMMtube	muscle
32	chr6:13412600-13415800	Enhancers	Left Ventricle	heart
33	chr6:13412600-13415800	Enhancers	Lung	lung
34	chr6:13412800-13415400	Enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
35	chr6:13412800-13415400	Enhancers	Gastric	stomach
36	chr6:13412800-13415800	Enhancers	Fetal Heart	heart
37	chr6:13412800-13416800	Enhancers	Brain Substantia Nigra	brain
38	chr6:13413000-13414600	Enhancers	NHLF	lung
39	chr6:13413200-13415000	Enhancers	Breast Myoepithelial Primary Cells	Breast
40	chr6:13413200-13415000	Enhancers	Brain Anterior Caudate	brain
41	chr6:13413200-13415200	Flanking Active TSS	Stomach Smooth Muscle	stomach
42	chr6:13413200-13415400	Enhancers	Fetal Stomach	stomach
43	chr6:13413200-13417800	Weak transcription	H1 Cell Line	embryonic stem cell
44	chr6:13413400-13414600	Weak transcription	Primary neutrophils fromperipheralblood	blood
45	chr6:13413400-13415000	Enhancers	Muscle Satellite Cultured Cells	--
46	chr6:13413400-13415000	Enhancers	Colon Smooth Muscle	Colon
47	chr6:13413400-13415200	Enhancers	Rectal Smooth Muscle	rectum
48	chr6:13413600-13414600	Enhancers	Osteobl	bone
49	chr6:13413600-13415000	Enhancers	Placenta	Placenta
50	chr6:13413600-13415200	Enhancers	Fetal Brain Male	brain

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