Variant report

Variant	rs72695748
Chromosome Location	chr4:159108108-159108109
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr4:159102536..159104114-chr4:159107627..159109273,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000251073	Chromatin interaction

Extended variants
information (count: 43 )
Associated
traits (count: 3 )

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

rs_ID	r²[population]
rs10517685	0.85[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs10517686	0.90[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs11100152	0.87[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs11933839	0.85[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs11939690	0.88[AMR][1000 genomes];1.00[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs17036992	0.90[EUR][1000 genomes]
rs17036995	0.90[EUR][1000 genomes]
rs17037201	0.85[AMR][1000 genomes];1.00[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs17037232	0.91[AMR][1000 genomes];1.00[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs17212066	0.94[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs17212714	0.94[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs17271385	0.85[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs17279270	0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs2881374	0.85[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs6820988	0.85[EUR][1000 genomes]
rs6834839	0.85[AMR][1000 genomes];0.97[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs6837943	0.91[AMR][1000 genomes];1.00[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs72691615	0.85[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs72691620	0.85[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs72691622	0.85[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs72691626	0.85[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs72691627	0.85[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs72691629	0.94[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs72691631	0.85[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs72691632	0.90[EUR][1000 genomes]
rs72691633	0.90[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs72691634	0.90[EUR][1000 genomes]
rs72691636	0.90[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs72691649	0.90[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs72695726	0.94[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs72695736	0.91[AMR][1000 genomes];0.98[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs72695741	0.94[AFR][1000 genomes];0.94[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72695744	0.81[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72695745	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72695747	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72695749	0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72695750	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72695751	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72695753	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7678302	0.83[AMR][1000 genomes];1.00[EUR][1000 genomes];0.86[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:3 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv993476	chr4:158550643-159202015	Weak transcription Enhancers Flanking Active TSS Active TSS Strong transcription ZNF genes & repeats Genic enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	16 gene(s)	inside rSNPs	diseases
2	nsv1030124	chr4:158758675-159251140	Bivalent/Poised TSS Enhancers Active TSS Flanking Active TSS Weak transcription Genic enhancers ZNF genes & repeats Strong transcription Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	13 gene(s)	inside rSNPs	diseases
3	nsv1021067	chr4:158972282-159175475	Enhancers Flanking Active TSS Active TSS Strong transcription Weak transcription Genic enhancers ZNF genes & repeats Bivalent/Poised TSS Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	10 gene(s)	inside rSNPs	diseases

mRNA abundance (count:3)

SNP	Gene	Cis/trans	Tissue	Source
rs72695748	TMEM144	cis	Esophagus Muscularis	GTEx
rs72695748	RP11-597D13.9	cis	Skin Sun Exposed Lower leg	GTEx
rs72695748	RP11-597D13.9	cis	Esophagus Muscularis	GTEx

Chromatin state (count:26 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr4:159095800-159113800	Weak transcription	Stomach Smooth Muscle	stomach
2	chr4:159096400-159113600	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
3	chr4:159096400-159131200	Weak transcription	Right Ventricle	heart
4	chr4:159096400-159131200	Weak transcription	HepG2	liver
5	chr4:159097800-159122400	Strong transcription	Monocytes-CD14+_RO01746	blood
6	chr4:159098400-159110200	Weak transcription	Duodenum Mucosa	Duodenum
7	chr4:159098400-159122800	Weak transcription	Fetal Intestine Small	intestine
8	chr4:159098800-159122800	Weak transcription	Fetal Intestine Large	intestine
9	chr4:159099600-159112800	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
10	chr4:159099800-159114200	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
11	chr4:159099800-159131200	Weak transcription	HSMM	muscle
12	chr4:159099800-159131400	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
13	chr4:159100000-159108600	Weak transcription	Ovary	ovary
14	chr4:159100200-159120200	Weak transcription	Aorta	Aorta
15	chr4:159101600-159130400	Weak transcription	HUVEC	blood vessel
16	chr4:159103600-159113200	Weak transcription	HMEC	breast
17	chr4:159103600-159113800	Weak transcription	Left Ventricle	heart
18	chr4:159104400-159113400	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
19	chr4:159104600-159111200	Weak transcription	Brain Anterior Caudate	brain
20	chr4:159107400-159108800	Strong transcription	Primary monocytes fromperipheralblood	blood
21	chr4:159107400-159109000	Strong transcription	Adipose Nuclei	Adipose
22	chr4:159107400-159112600	Strong transcription	HSMMtube	muscle
23	chr4:159107600-159118400	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
24	chr4:159107600-159131200	Weak transcription	Duodenum Smooth Muscle	Duodenum
25	chr4:159107800-159108200	Enhancers	Brain Substantia Nigra	brain
26	chr4:159108000-159108400	Weak transcription	Breast Myoepithelial Primary Cells	Breast

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links