Variant report

Variant	rs848828
Chromosome Location	chr5:106862778-106862779
allele	A/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 21 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:17)

rs_ID	r²[population]
rs11957374	1.00[CHB][hapmap]
rs13178589	1.00[CHB][hapmap];0.90[ASN][1000 genomes]
rs152554	0.82[AMR][1000 genomes];0.95[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs163888	1.00[CHB][hapmap]
rs17160159	1.00[CHB][hapmap]
rs17414033	1.00[CHB][hapmap]
rs250250	0.90[ASN][1000 genomes]
rs250251	0.82[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs250252	0.90[ASN][1000 genomes]
rs250253	0.96[CEU][hapmap];0.96[EUR][1000 genomes]
rs388016	1.00[CEU][hapmap];0.86[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs395561	0.80[EUR][1000 genomes]
rs446774	0.96[CEU][hapmap];0.99[EUR][1000 genomes]
rs6882355	1.00[CHB][hapmap]
rs6883713	1.00[CHB][hapmap]
rs6884705	1.00[CHB][hapmap]
rs848827	1.00[CEU][hapmap];0.93[AMR][1000 genomes];0.99[EUR][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	nsv1034276	chr5:106461538-106944163	Weak transcription Enhancers Active TSS Flanking Active TSS Bivalent Enhancer Strong transcription ZNF genes & repeats Genic enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	6 gene(s)	inside rSNPs	diseases
2	nsv537851	chr5:106461538-106944163	Enhancers Weak transcription Flanking Active TSS Active TSS Flanking Bivalent TSS/Enh Genic enhancers Strong transcription Bivalent Enhancer ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	6 gene(s)	inside rSNPs	diseases
3	esv34018	chr5:106720912-107110506	Enhancers Weak transcription Flanking Active TSS Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer Genic enhancers Strong transcription ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	16 gene(s)	inside rSNPs	diseases
4	esv3368242	chr5:106862718-106862936	Weak transcription Enhancers	n/a	n/a	inside rSNPs	diseases

No data

Chromatin state (count:39 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr5:106842400-106880000	Weak transcription	Gastric	stomach
2	chr5:106848800-106865000	Weak transcription	Right Atrium	heart
3	chr5:106856000-106865000	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
4	chr5:106856000-106868600	Weak transcription	Right Ventricle	heart
5	chr5:106856400-106865000	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
6	chr5:106856600-106865000	Weak transcription	HUES6 Cell Line	embryonic stem cell
7	chr5:106856600-106865000	Weak transcription	Aorta	Aorta
8	chr5:106857400-106868000	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
9	chr5:106857800-106867200	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
10	chr5:106859400-106865000	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
11	chr5:106859600-106863800	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
12	chr5:106859600-106865000	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
13	chr5:106859600-106873600	Weak transcription	Cortex derived primary cultured neurospheres	brain
14	chr5:106860000-106864800	Weak transcription	H1 Cell Line	embryonic stem cell
15	chr5:106860000-106865000	Weak transcription	H9 Cell Line	embryonic stem cell
16	chr5:106860200-106865000	Weak transcription	Left Ventricle	heart
17	chr5:106860400-106864800	Weak transcription	iPS-15b Cell Line	embryonic stem cell
18	chr5:106860600-106865200	Weak transcription	Breast Myoepithelial Primary Cells	Breast
19	chr5:106860600-106867000	Weak transcription	Fetal Kidney	kidney
20	chr5:106860600-106874600	Weak transcription	Pancreatic Islets	Pancreatic Islet
21	chr5:106860800-106864600	Weak transcription	iPS-20b Cell Line	embryonic stem cell
22	chr5:106861600-106864200	Enhancers	A549	lung
23	chr5:106861800-106862800	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
24	chr5:106861800-106862800	Enhancers	HSMM	muscle
25	chr5:106861800-106863000	Enhancers	Muscle Satellite Cultured Cells	--
26	chr5:106862000-106862800	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
27	chr5:106862000-106862800	Enhancers	Fetal Heart	heart
28	chr5:106862200-106863200	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
29	chr5:106862200-106863600	Weak transcription	iPS-18 Cell Line	embryonic stem cell
30	chr5:106862200-106865200	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
31	chr5:106862200-106867200	Weak transcription	Placenta Amnion	Placenta Amnion
32	chr5:106862400-106863600	Weak transcription	HUES64 Cell Line	embryonic stem cell
33	chr5:106862400-106863600	Weak transcription	Stomach Mucosa	stomach
34	chr5:106862400-106864800	Weak transcription	HUES48 Cell Line	embryonic stem cell
35	chr5:106862400-106865000	Weak transcription	ES-I3 Cell Line	embryonic stem cell
36	chr5:106862400-106865000	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
37	chr5:106862400-106865400	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
38	chr5:106862400-106868000	Weak transcription	HSMMtube	muscle
39	chr5:106862400-106873800	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast

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