Variant report

Variant	rs6832149
Chromosome Location	chr4:152196218-152196219
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 39 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:34)

rs_ID	r²[population]
rs10015834	0.81[EUR][1000 genomes]
rs10016704	0.83[EUR][1000 genomes]
rs11099802	0.82[EUR][1000 genomes]
rs11721421	0.82[EUR][1000 genomes]
rs11726496	0.82[EUR][1000 genomes]
rs11733473	0.83[EUR][1000 genomes]
rs11733600	0.85[CEU][hapmap];0.82[EUR][1000 genomes]
rs11734518	0.82[EUR][1000 genomes]
rs11735681	0.81[EUR][1000 genomes]
rs12508449	0.85[CEU][hapmap]
rs13112985	0.96[CEU][hapmap];0.87[TSI][hapmap]
rs13117723	0.96[CEU][hapmap];0.87[TSI][hapmap]
rs13126069	0.96[CEU][hapmap];0.87[TSI][hapmap]
rs1316858	0.96[CEU][hapmap];0.87[TSI][hapmap]
rs17590780	0.82[EUR][1000 genomes]
rs28532758	0.96[AFR][1000 genomes];0.98[AMR][1000 genomes];0.95[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs28760401	0.96[AFR][1000 genomes];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs35245353	0.83[EUR][1000 genomes]
rs3990708	0.85[CEU][hapmap];0.82[EUR][1000 genomes]
rs4385037	0.96[CEU][hapmap]
rs55855806	0.82[EUR][1000 genomes]
rs55869644	0.82[EUR][1000 genomes]
rs55905531	0.82[EUR][1000 genomes]
rs56220030	0.81[EUR][1000 genomes]
rs6535783	1.00[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6535785	0.84[CEU][hapmap];0.90[GIH][hapmap];0.82[EUR][1000 genomes]
rs6844852	0.85[AMR][1000 genomes];0.90[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs6849871	0.85[CEU][hapmap];0.82[EUR][1000 genomes]
rs6851493	0.83[EUR][1000 genomes]
rs72725927	0.82[EUR][1000 genomes]
rs7689875	0.95[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs9990564	0.81[EUR][1000 genomes]
rs9994652	0.83[EUR][1000 genomes]
rs9997353	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.95[AMR][1000 genomes];0.98[EUR][1000 genomes];0.95[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:5 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1034948	chr4:151590115-152202687	Weak transcription Strong transcription Enhancers Active TSS Flanking Active TSS Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent/Poised TSS Genic enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	38 gene(s)	inside rSNPs	diseases
2	nsv537302	chr4:151590115-152202687	ZNF genes & repeats Weak transcription Active TSS Flanking Active TSS Enhancers Strong transcription Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Genic enhancers Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	38 gene(s)	inside rSNPs	diseases
3	nsv530159	chr4:151624865-152203910	Weak transcription Strong transcription Enhancers Flanking Active TSS ZNF genes & repeats Active TSS Genic enhancers 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	38 gene(s)	inside rSNPs	diseases
4	nsv880262	chr4:151712054-152519899	Enhancers Weak transcription Strong transcription Bivalent Enhancer Active TSS Flanking Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Genic enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	53 gene(s)	inside rSNPs	diseases
5	nsv881526	chr4:151968295-152489087	Flanking Active TSS Enhancers Active TSS Strong transcription Weak transcription Transcr. at gene 5' and 3' Bivalent Enhancer Genic enhancers Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	33 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs6832149	FAM160A1	cis	cerebellum	SCAN

Chromatin state (count:36 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr4:152149200-152197600	Weak transcription	Rectal Mucosa Donor 29	rectum
2	chr4:152173800-152198200	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
3	chr4:152177400-152198200	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
4	chr4:152177800-152200000	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
5	chr4:152182600-152211000	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
6	chr4:152182800-152206000	Weak transcription	NHEK	skin
7	chr4:152183200-152198200	Weak transcription	HUES6 Cell Line	embryonic stem cell
8	chr4:152185000-152198200	Weak transcription	Right Ventricle	heart
9	chr4:152185200-152197600	Weak transcription	Left Ventricle	heart
10	chr4:152188600-152204000	Weak transcription	Gastric	stomach
11	chr4:152189200-152197600	Weak transcription	Ovary	ovary
12	chr4:152189400-152197600	Weak transcription	Fetal Intestine Small	intestine
13	chr4:152189400-152197600	Weak transcription	HepG2	liver
14	chr4:152189400-152198200	Weak transcription	Fetal Intestine Large	intestine
15	chr4:152189400-152202400	Weak transcription	Rectal Mucosa Donor 31	rectum
16	chr4:152189400-152205800	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
17	chr4:152189600-152198400	Weak transcription	Duodenum Mucosa	Duodenum
18	chr4:152190800-152208600	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
19	chr4:152191200-152204200	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
20	chr4:152192600-152197600	Weak transcription	Brain Cingulate Gyrus	brain
21	chr4:152192800-152197400	Weak transcription	Brain Angular Gyrus	brain
22	chr4:152192800-152197400	Weak transcription	Brain Hippocampus Middle	brain
23	chr4:152192800-152198200	Weak transcription	Brain Inferior Temporal Lobe	brain
24	chr4:152193600-152197600	Weak transcription	Brain Substantia Nigra	brain
25	chr4:152193800-152198200	Weak transcription	iPS-20b Cell Line	embryonic stem cell
26	chr4:152194000-152197400	Weak transcription	Breast Myoepithelial Primary Cells	Breast
27	chr4:152194000-152197600	Weak transcription	Cortex derived primary cultured neurospheres	brain
28	chr4:152194000-152198200	Weak transcription	iPS-15b Cell Line	embryonic stem cell
29	chr4:152194200-152197600	Weak transcription	Stomach Mucosa	stomach
30	chr4:152194200-152197800	Weak transcription	HUES48 Cell Line	embryonic stem cell
31	chr4:152194200-152202400	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
32	chr4:152194200-152213200	Weak transcription	Stomach Smooth Muscle	stomach
33	chr4:152194400-152198200	Weak transcription	iPS-18 Cell Line	embryonic stem cell
34	chr4:152196000-152204000	Weak transcription	Fetal Stomach	stomach
35	chr4:152196000-152218400	Weak transcription	Psoas Muscle	Psoas
36	chr4:152196200-152199600	Weak transcription	Right Atrium	heart

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