Variant report

Variant	rs6507693
Chromosome Location	chr18:43829137-43829138
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr18:43752714..43757131-chr18:43829030..43833510,5	MCF-7	breast:
2	chr18:43822903..43824970-chr18:43829081..43831367,2	K562	blood:
3	chr18:43823470..43825591-chr18:43828533..43831367,2	K562	blood:

Variant related genes	Relation type
ENSG00000152242	Chromatin interaction

Extended variants
information (count: 106 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:105)

rs_ID	r²[population]
rs11082514	0.92[EUR][1000 genomes]
rs11082518	1.00[CEU][hapmap];0.86[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs11082519	0.93[ASN][1000 genomes]
rs12457516	0.88[ASN][1000 genomes]
rs12457740	0.86[EUR][1000 genomes]
rs12605945	1.00[CEU][hapmap];0.89[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs12607898	1.00[CEU][hapmap];0.83[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs12608232	0.83[AMR][1000 genomes];0.93[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs12709736	0.97[EUR][1000 genomes]
rs12962307	1.00[CEU][hapmap];0.84[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs12962951	0.88[AMR][1000 genomes];0.97[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs12963787	0.85[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs12963943	0.81[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs12969147	0.95[CEU][hapmap];0.87[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs13381496	0.85[EUR][1000 genomes]
rs13381515	0.87[EUR][1000 genomes]
rs13381523	0.87[EUR][1000 genomes]
rs13381525	0.88[EUR][1000 genomes]
rs13381529	0.87[EUR][1000 genomes]
rs1808946	0.92[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs36191490	0.94[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3744858	1.00[CEU][hapmap];0.84[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs4335852	0.93[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs4453594	0.85[AMR][1000 genomes];0.97[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs4453596	0.89[CEU][hapmap];0.87[EUR][1000 genomes]
rs4542747	0.95[CEU][hapmap];0.85[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs4574015	0.94[CEU][hapmap];0.86[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs4627465	0.81[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs4890317	0.89[CEU][hapmap];0.82[AMR][1000 genomes];0.93[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs4890319	1.00[CEU][hapmap];0.90[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4890320	0.90[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4890321	0.86[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs4890626	0.88[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs4890628	1.00[CEU][hapmap];0.80[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs4890629	0.94[CEU][hapmap];0.87[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs4890631	0.86[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4890632	1.00[CEU][hapmap];0.86[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs4890633	1.00[CEU][hapmap];0.91[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4890634	0.97[AFR][1000 genomes];0.95[AMR][1000 genomes];0.95[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs4890635	0.91[ASN][1000 genomes]
rs55747741	0.87[EUR][1000 genomes]
rs62096523	0.85[EUR][1000 genomes]
rs62096524	0.85[EUR][1000 genomes]
rs62096525	0.87[EUR][1000 genomes]
rs62096526	0.86[EUR][1000 genomes]
rs62098160	0.85[AMR][1000 genomes];0.93[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs6507670	0.81[EUR][1000 genomes]
rs6507676	0.84[EUR][1000 genomes]
rs6507677	0.82[AMR][1000 genomes];0.91[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs6507680	0.93[EUR][1000 genomes]
rs6507681	0.86[EUR][1000 genomes]
rs6507682	0.83[AMR][1000 genomes];0.93[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs6507690	0.88[AMR][1000 genomes];0.99[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs6507691	0.85[AMR][1000 genomes];0.97[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs6507692	0.86[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs718513	0.90[CEU][hapmap];0.84[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs718514	1.00[CEU][hapmap];0.91[AMR][1000 genomes];0.95[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs7227847	0.80[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs7228365	0.95[CEU][hapmap];0.88[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7230154	0.95[CEU][hapmap];0.91[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7230995	0.88[AMR][1000 genomes];0.97[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs7231430	0.94[CEU][hapmap];0.91[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7231820	0.89[CEU][hapmap];0.86[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs7234695	0.95[CEU][hapmap];0.91[EUR][1000 genomes]
rs7236687	0.83[EUR][1000 genomes]
rs7239351	1.00[CEU][hapmap];0.84[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs7240354	0.83[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs7241527	0.84[CEU][hapmap];0.83[EUR][1000 genomes]
rs7241829	0.84[EUR][1000 genomes]
rs7242375	0.81[EUR][1000 genomes]
rs7245091	0.89[CEU][hapmap];0.86[EUR][1000 genomes]
rs73425119	0.87[EUR][1000 genomes]
rs8084309	0.89[CEU][hapmap];0.88[EUR][1000 genomes]
rs8084827	0.86[EUR][1000 genomes]
rs8084829	0.83[AMR][1000 genomes];0.96[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs8085138	0.80[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs8086610	0.85[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs8086956	0.94[CEU][hapmap];0.95[EUR][1000 genomes]
rs8090542	0.80[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs8093407	0.91[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs8094070	0.91[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs8094706	0.94[CEU][hapmap];0.93[EUR][1000 genomes]
rs8095142	0.81[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs8095729	0.86[EUR][1000 genomes]
rs8095799	0.83[AMR][1000 genomes];0.96[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs8098751	0.91[AMR][1000 genomes];0.97[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs8099202	1.00[CEU][hapmap];0.96[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9675387	0.87[CEU][hapmap];0.88[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs9807157	0.94[CEU][hapmap];0.92[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9944715	1.00[CEU][hapmap];0.89[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs9944767	0.94[CEU][hapmap];0.86[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9944836	0.94[CEU][hapmap];0.92[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9945783	0.95[CEU][hapmap];0.80[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs9947206	0.85[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs9948282	0.85[AMR][1000 genomes];0.96[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs9949494	1.00[CEU][hapmap];0.84[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs9951624	0.92[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9952469	1.00[CEU][hapmap];0.89[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs9952654	0.91[AMR][1000 genomes];0.97[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs9956574	0.89[CEU][hapmap];0.86[AMR][1000 genomes];0.96[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs9959813	0.94[CEU][hapmap];0.90[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9959905	0.93[CEU][hapmap];0.85[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs9960378	0.90[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs9963153	0.94[CEU][hapmap];0.92[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9963843	1.00[CEU][hapmap]

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	nsv1064031	chr18:43782309-43878806	Weak transcription Enhancers Strong transcription Active TSS Flanking Active TSS Genic enhancers Bivalent Enhancer ZNF genes & repeats Transcr. at gene 5' and 3'	Chromatin interactive region lncRNA miRNA target site	3 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs6507693	C18orf25	Cis_1M	lymphoblastoid	RTeQTL

Chromatin state (count:109 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr18:43797000-43833400	Weak transcription	Fetal Muscle Trunk	muscle
2	chr18:43797400-43829600	Weak transcription	Rectal Mucosa Donor 29	rectum
3	chr18:43798800-43833800	Weak transcription	HepG2	liver
4	chr18:43799000-43834000	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
5	chr18:43801200-43829600	Weak transcription	Thymus	Thymus
6	chr18:43802800-43830000	Weak transcription	Brain Substantia Nigra	brain
7	chr18:43804800-43829400	Weak transcription	Primary hematopoietic stem cells	blood
8	chr18:43805400-43829800	Weak transcription	Fetal Intestine Large	intestine
9	chr18:43810200-43829400	Weak transcription	Fetal Intestine Small	intestine
10	chr18:43810200-43832400	Weak transcription	Aorta	Aorta
11	chr18:43815200-43830000	Weak transcription	Brain Cingulate Gyrus	brain
12	chr18:43815400-43829400	Weak transcription	Left Ventricle	heart
13	chr18:43815400-43830000	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
14	chr18:43815400-43830000	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
15	chr18:43815400-43830200	Weak transcription	Gastric	stomach
16	chr18:43815600-43829600	Weak transcription	Duodenum Smooth Muscle	Duodenum
17	chr18:43815600-43829600	Weak transcription	Skeletal Muscle Male	skeletal muscle
18	chr18:43815800-43829400	Weak transcription	Rectal Smooth Muscle	rectum
19	chr18:43815800-43830000	Weak transcription	Brain Angular Gyrus	brain
20	chr18:43816800-43829400	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
21	chr18:43817600-43829800	Weak transcription	Pancreas	Pancrea
22	chr18:43817600-43830200	Weak transcription	Stomach Smooth Muscle	stomach
23	chr18:43819600-43829600	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
24	chr18:43819600-43829600	Weak transcription	NHLF	lung
25	chr18:43820200-43829600	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
26	chr18:43820200-43829600	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
27	chr18:43820400-43829800	Weak transcription	H1 Cell Line	embryonic stem cell
28	chr18:43820400-43830000	Weak transcription	HUES64 Cell Line	embryonic stem cell
29	chr18:43820400-43830000	Weak transcription	Brain Anterior Caudate	brain
30	chr18:43820600-43829400	Weak transcription	Primary monocytes fromperipheralblood	blood
31	chr18:43820600-43829400	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
32	chr18:43820600-43829400	Weak transcription	Monocytes-CD14+_RO01746	blood
33	chr18:43820600-43829600	Weak transcription	Muscle Satellite Cultured Cells	--
34	chr18:43820600-43829600	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
35	chr18:43820600-43829800	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
36	chr18:43820600-43830000	Weak transcription	iPS-20b Cell Line	embryonic stem cell
37	chr18:43820600-43833400	Weak transcription	Ovary	ovary
38	chr18:43823600-43830000	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
39	chr18:43823600-43830600	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
40	chr18:43824200-43830600	Weak transcription	iPS-18 Cell Line	embryonic stem cell
41	chr18:43824600-43829800	Enhancers	Primary T helper naive cells fromperipheralblood	blood
42	chr18:43825200-43829800	Weak transcription	Cortex derived primary cultured neurospheres	brain
43	chr18:43825200-43830800	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
44	chr18:43825400-43844200	Weak transcription	Fetal Brain Female	brain
45	chr18:43825800-43834000	Weak transcription	Liver	Liver
46	chr18:43826000-43830200	Weak transcription	Brain Inferior Temporal Lobe	brain
47	chr18:43826200-43829600	Weak transcription	ES-I3 Cell Line	embryonic stem cell
48	chr18:43826200-43840000	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
49	chr18:43826400-43829600	Weak transcription	Fetal Heart	heart
50	chr18:43826400-43830000	Weak transcription	HUES48 Cell Line	embryonic stem cell

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links