Variant report

Variant	rs34850
Chromosome Location	chr5:115142745-115142746
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr5:115141541..115143905-chr5:115175630..115177560,2	MCF-7	breast:
2	chr5:115140820..115143368-chr5:115146750..115149183,3	MCF-7	breast:
3	chr5:115142644..115144200-chr5:115144914..115146668,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000145782	Chromatin interaction
ENSG00000177879	Chromatin interaction

Extended variants
information (count: 32 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:30)

rs_ID	r²[population]
rs10434761	0.90[ASN][1000 genomes]
rs1058600	0.85[CHB][hapmap];0.90[JPT][hapmap];0.88[ASN][1000 genomes]
rs12189155	0.93[ASN][1000 genomes]
rs12520248	0.90[ASN][1000 genomes]
rs12521324	0.96[ASN][1000 genomes]
rs13174348	0.91[CHB][hapmap];0.95[JPT][hapmap];0.96[ASN][1000 genomes]
rs154757	0.89[AFR][1000 genomes];0.96[AMR][1000 genomes];0.85[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs154759	0.88[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs258738	0.92[ASN][1000 genomes]
rs26531	0.84[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap];0.89[AMR][1000 genomes];0.93[ASN][1000 genomes]
rs26533	0.85[ASN][1000 genomes]
rs26534	0.88[CEU][hapmap];0.91[CHB][hapmap];0.95[JPT][hapmap];0.85[AMR][1000 genomes];0.85[ASN][1000 genomes]
rs26535	0.82[AMR][1000 genomes];0.85[ASN][1000 genomes]
rs26536	0.86[CHB][hapmap];0.81[JPT][hapmap];0.83[ASN][1000 genomes]
rs26537	0.82[CHB][hapmap]
rs34851	0.83[AFR][1000 genomes];0.91[AMR][1000 genomes];0.90[ASN][1000 genomes]
rs34852	0.83[AMR][1000 genomes];0.91[ASN][1000 genomes]
rs34869	0.91[CHB][hapmap];0.91[JPT][hapmap];0.88[ASN][1000 genomes]
rs35053218	0.96[ASN][1000 genomes]
rs35179959	0.88[ASN][1000 genomes]
rs35903246	0.85[ASN][1000 genomes]
rs3797570	0.91[CHB][hapmap];0.95[JPT][hapmap];0.87[ASN][1000 genomes]
rs40095	0.90[AMR][1000 genomes];0.91[ASN][1000 genomes]
rs4920892	0.90[ASN][1000 genomes]
rs57633641	0.86[ASN][1000 genomes]
rs6594906	0.86[ASN][1000 genomes]
rs6872406	0.91[CHB][hapmap];0.95[JPT][hapmap];0.90[ASN][1000 genomes]
rs6880889	0.91[CHB][hapmap];0.95[JPT][hapmap];0.87[ASN][1000 genomes]
rs71581214	0.89[ASN][1000 genomes]
rs7726368	0.86[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:2 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv868915	chr5:114723371-115252527	Enhancers Weak transcription Strong transcription Active TSS Flanking Active TSS Transcr. at gene 5' and 3' Genic enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	41 gene(s)	inside rSNPs	diseases
2	nsv949677	chr5:115104829-115496168	Enhancers Weak transcription Active TSS Strong transcription Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh Flanking Active TSS ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	40 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:44 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr5:115131400-115149200	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
2	chr5:115134200-115149600	Weak transcription	Ovary	ovary
3	chr5:115134400-115146200	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
4	chr5:115134400-115147000	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
5	chr5:115136800-115144200	Weak transcription	Fetal Brain Male	brain
6	chr5:115137600-115143800	Weak transcription	Stomach Smooth Muscle	stomach
7	chr5:115137800-115147200	Strong transcription	H9 Derived Neuron Cultured Cells	ES cell derived
8	chr5:115138000-115143800	Weak transcription	Fetal Muscle Leg	muscle
9	chr5:115138000-115147800	Weak transcription	Fetal Stomach	stomach
10	chr5:115138200-115145000	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
11	chr5:115138200-115146200	Strong transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
12	chr5:115138200-115149200	Weak transcription	Aorta	Aorta
13	chr5:115138200-115149800	Weak transcription	Fetal Muscle Trunk	muscle
14	chr5:115138400-115149800	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
15	chr5:115138400-115150800	Weak transcription	Brain Substantia Nigra	brain
16	chr5:115138400-115151000	Weak transcription	Breast Myoepithelial Primary Cells	Breast
17	chr5:115138600-115145800	Strong transcription	Adipose Nuclei	Adipose
18	chr5:115139200-115149400	Weak transcription	HUES6 Cell Line	embryonic stem cell
19	chr5:115139200-115149600	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
20	chr5:115139200-115149600	Weak transcription	Brain Hippocampus Middle	brain
21	chr5:115139400-115144000	Weak transcription	Brain Anterior Caudate	brain
22	chr5:115139400-115145600	Strong transcription	Cortex derived primary cultured neurospheres	brain
23	chr5:115139800-115149800	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
24	chr5:115140400-115142800	Strong transcription	Fetal Lung	lung
25	chr5:115140400-115149600	Weak transcription	Brain Cingulate Gyrus	brain
26	chr5:115140600-115147000	Strong transcription	Fetal Brain Female	brain
27	chr5:115140800-115147000	Strong transcription	Ganglion Eminence derived primary cultured neurospheres	brain
28	chr5:115141000-115147800	Weak transcription	Fetal Kidney	kidney
29	chr5:115141400-115142800	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
30	chr5:115141400-115144800	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
31	chr5:115141800-115148000	Genic enhancers	Liver	Liver
32	chr5:115142000-115142800	Strong transcription	Brain Inferior Temporal Lobe	brain
33	chr5:115142200-115143200	Genic enhancers	iPS-18 Cell Line	embryonic stem cell
34	chr5:115142200-115143600	Enhancers	HUES64 Cell Line	embryonic stem cell
35	chr5:115142200-115143600	Enhancers	HepG2	liver
36	chr5:115142400-115142800	Enhancers	iPS-20b Cell Line	embryonic stem cell
37	chr5:115142400-115143400	Enhancers	Dnd41	blood
38	chr5:115142400-115143600	Enhancers	HUES48 Cell Line	embryonic stem cell
39	chr5:115142400-115143800	Weak transcription	Placenta	Placenta
40	chr5:115142400-115144200	Weak transcription	Brain Germinal Matrix	brain
41	chr5:115142600-115143200	Enhancers	H1 Cell Line	embryonic stem cell
42	chr5:115142600-115143200	Weak transcription	Placenta Amnion	Placenta Amnion
43	chr5:115142600-115143400	Enhancers	ES-I3 Cell Line	embryonic stem cell
44	chr5:115142600-115143400	Enhancers	iPS-15b Cell Line	embryonic stem cell

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links