Variant report

Variant	rs13354808
Chromosome Location	chr5:79499661-79499662
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr5:79486187..79489980-chr5:79497406..79500958,4	K562	blood:
2	chr5:79484287..79486175-chr5:79497983..79500129,2	MCF-7	breast:
3	chr5:79498138..79500647-chr5:79519538..79521427,2	K562	blood:
4	chr5:79493019..79494744-chr5:79499346..79502038,2	MCF-7	breast:

Extended variants
information (count: 17 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:16)

rs_ID	r²[population]
rs10036141	0.85[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs10036779	0.91[EUR][1000 genomes]
rs10041410	0.83[CEU][hapmap]
rs10058560	0.93[EUR][1000 genomes]
rs10061215	0.82[AFR][1000 genomes]
rs10068511	0.88[CEU][hapmap];0.84[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs12697906	0.89[EUR][1000 genomes]
rs13170471	0.81[CEU][hapmap]
rs13178966	0.81[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs13355153	0.83[CEU][hapmap]
rs17200856	0.82[CEU][hapmap]
rs35696683	0.85[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs4703805	1.00[YRI][hapmap];0.89[AFR][1000 genomes]
rs56040222	0.84[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs6888220	0.88[CEU][hapmap]
rs9293805	1.00[CEU][hapmap];0.85[AMR][1000 genomes];0.95[EUR][1000 genomes]

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	nsv432748	chr5:79300434-79577760	Enhancers Genic enhancers Weak transcription Bivalent Enhancer Flanking Active TSS Strong transcription ZNF genes & repeats Bivalent/Poised TSS Active TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	22 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:113 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr5:79489000-79500800	Weak transcription	Muscle Satellite Cultured Cells	--
2	chr5:79489200-79500800	Weak transcription	Primary neutrophils fromperipheralblood	blood
3	chr5:79489600-79500400	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
4	chr5:79489800-79500000	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
5	chr5:79489800-79500800	Weak transcription	HSMM	muscle
6	chr5:79489800-79502000	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
7	chr5:79490800-79500200	Weak transcription	Small Intestine	intestine
8	chr5:79490800-79500800	Weak transcription	HSMMtube	muscle
9	chr5:79490800-79513800	Weak transcription	Fetal Kidney	kidney
10	chr5:79491600-79500400	Strong transcription	Monocytes-CD14+_RO01746	blood
11	chr5:79491800-79500800	Genic enhancers	Primary T helper naive cells fromperipheralblood	blood
12	chr5:79491800-79501000	Genic enhancers	Primary T cells fromperipheralblood	blood
13	chr5:79492000-79500000	Strong transcription	Fetal Stomach	stomach
14	chr5:79492000-79500200	Genic enhancers	Primary T helper cells fromperipheralblood	blood
15	chr5:79492000-79504200	Weak transcription	Colon Smooth Muscle	Colon
16	chr5:79492200-79500200	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
17	chr5:79492200-79500400	Strong transcription	iPS-20b Cell Line	embryonic stem cell
18	chr5:79492200-79501800	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
19	chr5:79492200-79506200	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
20	chr5:79492400-79500400	Strong transcription	HUES64 Cell Line	embryonic stem cell
21	chr5:79493200-79499800	Strong transcription	Sigmoid Colon	Sigmoid Colon
22	chr5:79493400-79501000	Strong transcription	ES-I3 Cell Line	embryonic stem cell
23	chr5:79493400-79501000	Strong transcription	Dnd41	blood
24	chr5:79494200-79500800	Genic enhancers	Primary T helper cells PMA-I stimulated	--
25	chr5:79495000-79500400	Strong transcription	Primary T regulatory cells fromperipheralblood	blood
26	chr5:79495000-79500800	Weak transcription	Right Atrium	heart
27	chr5:79495200-79499800	Weak transcription	Stomach Mucosa	stomach
28	chr5:79495200-79500000	Strong transcription	HUES6 Cell Line	embryonic stem cell
29	chr5:79495200-79500400	Strong transcription	Primary mononuclear cells fromperipheralblood	Blood
30	chr5:79495200-79507800	Weak transcription	Right Ventricle	heart
31	chr5:79495600-79503600	Weak transcription	Skeletal Muscle Female	skeletal muscle
32	chr5:79495800-79499800	Strong transcription	Cortex derived primary cultured neurospheres	brain
33	chr5:79496000-79499800	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
34	chr5:79496200-79500200	Strong transcription	Fetal Muscle Trunk	muscle
35	chr5:79496400-79500000	Strong transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
36	chr5:79496400-79500000	Strong transcription	Fetal Muscle Leg	muscle
37	chr5:79496400-79500200	Genic enhancers	Primary T killer naive cells fromperipheralblood	blood
38	chr5:79496800-79501000	Strong transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
39	chr5:79497000-79500400	Strong transcription	iPS-15b Cell Line	embryonic stem cell
40	chr5:79497000-79506800	Enhancers	Brain Inferior Temporal Lobe	brain
41	chr5:79497000-79508800	Enhancers	Brain Substantia Nigra	brain
42	chr5:79497200-79505400	Enhancers	Brain Angular Gyrus	brain
43	chr5:79497400-79501400	Strong transcription	ES-UCSF4 Cell Line	embryonic stem cell
44	chr5:79497400-79515000	Weak transcription	Esophagus	oesophagus
45	chr5:79497600-79500400	Genic enhancers	Primary T helper naive cells from peripheral blood	blood
46	chr5:79497800-79499800	Weak transcription	Fetal Heart	heart
47	chr5:79497800-79503600	Weak transcription	Fetal Brain Female	brain
48	chr5:79497800-79508400	Weak transcription	Primary B cells from peripheral blood	blood
49	chr5:79498200-79500000	Strong transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
50	chr5:79498200-79501400	Strong transcription	NHEK	skin

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links