Variant report

Variant	rs10477199
Chromosome Location	chr5:142436282-142436283
allele	A/C
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr5:142429610..142433984-chr5:142435999..142437847,3	K562	blood:

Extended variants
information (count: 23 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:19)

rs_ID	r²[population]
rs10044668	1.00[EUR][1000 genomes]
rs10045128	1.00[EUR][1000 genomes]
rs10051655	1.00[EUR][1000 genomes]
rs10056044	1.00[EUR][1000 genomes]
rs10074187	1.00[EUR][1000 genomes]
rs10076583	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs10080138	1.00[EUR][1000 genomes]
rs10155562	1.00[EUR][1000 genomes]
rs10214217	1.00[EUR][1000 genomes]
rs10477202	1.00[EUR][1000 genomes]
rs11951777	1.00[EUR][1000 genomes]
rs12332305	1.00[EUR][1000 genomes]
rs13356063	1.00[EUR][1000 genomes]
rs2108645	1.00[EUR][1000 genomes]
rs28688005	1.00[EUR][1000 genomes]
rs58817012	1.00[EUR][1000 genomes]
rs7702357	1.00[EUR][1000 genomes]
rs9324902	1.00[EUR][1000 genomes]
rs9324906	1.00[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	esv2830375	chr5:141991792-142449956	Enhancers Flanking Active TSS Weak transcription Active TSS ZNF genes & repeats Strong transcription Genic enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases
2	nsv830511	chr5:142335447-142496694	Weak transcription Flanking Active TSS Enhancers Strong transcription Genic enhancers Active TSS ZNF genes & repeats Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
3	nsv1025662	chr5:142345454-142498236	Weak transcription Enhancers Strong transcription Flanking Active TSS ZNF genes & repeats Genic enhancers Active TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
4	nsv522807	chr5:142417658-142529960	Weak transcription Enhancers ZNF genes & repeats Strong transcription Flanking Active TSS Genic enhancers Active TSS Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region	2 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:105 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr5:142400000-142442600	Weak transcription	Spleen	Spleen
2	chr5:142403600-142445000	Weak transcription	Colonic Mucosa	Colon
3	chr5:142421600-142442600	Weak transcription	Esophagus	oesophagus
4	chr5:142421800-142436800	Weak transcription	Primary T helper naive cells from peripheral blood	blood
5	chr5:142422000-142442600	Weak transcription	Lung	lung
6	chr5:142422400-142436800	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
7	chr5:142422800-142436600	Weak transcription	Primary B cells from cord blood	blood
8	chr5:142422800-142445000	Weak transcription	Thymus	Thymus
9	chr5:142426800-142442600	Weak transcription	Cortex derived primary cultured neurospheres	brain
10	chr5:142431000-142438800	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
11	chr5:142431200-142436800	Weak transcription	Right Atrium	heart
12	chr5:142431200-142442600	Weak transcription	Brain Anterior Caudate	brain
13	chr5:142431200-142442600	Weak transcription	Brain Cingulate Gyrus	brain
14	chr5:142431200-142442600	Weak transcription	Brain Inferior Temporal Lobe	brain
15	chr5:142431400-142442600	Weak transcription	Small Intestine	intestine
16	chr5:142431600-142436400	Weak transcription	Colon Smooth Muscle	Colon
17	chr5:142431600-142436800	Weak transcription	Aorta	Aorta
18	chr5:142431600-142436800	Enhancers	Skeletal Muscle Female	skeletal muscle
19	chr5:142431600-142437200	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
20	chr5:142431600-142437200	Weak transcription	Gastric	stomach
21	chr5:142431600-142437400	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
22	chr5:142431600-142437400	Weak transcription	iPS-18 Cell Line	embryonic stem cell
23	chr5:142431600-142439200	Weak transcription	HUES64 Cell Line	embryonic stem cell
24	chr5:142431600-142439800	Weak transcription	Stomach Smooth Muscle	stomach
25	chr5:142431600-142442400	Weak transcription	Stomach Mucosa	stomach
26	chr5:142431600-142442600	Enhancers	Skeletal Muscle Male	skeletal muscle
27	chr5:142431600-142442800	Weak transcription	Pancreas	Pancrea
28	chr5:142431600-142443000	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
29	chr5:142431600-142446200	Weak transcription	iPS-15b Cell Line	embryonic stem cell
30	chr5:142431600-142446400	Weak transcription	HUES48 Cell Line	embryonic stem cell
31	chr5:142431800-142437200	Weak transcription	HepG2	liver
32	chr5:142431800-142438800	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
33	chr5:142431800-142439000	Weak transcription	Fetal Lung	lung
34	chr5:142431800-142439400	Weak transcription	Fetal Stomach	stomach
35	chr5:142432000-142437000	Weak transcription	Fetal Muscle Trunk	muscle
36	chr5:142432400-142436800	Weak transcription	Fetal Intestine Small	intestine
37	chr5:142432400-142442600	Weak transcription	H1 Cell Line	embryonic stem cell
38	chr5:142432400-142442600	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
39	chr5:142432600-142439200	Strong transcription	Fetal Intestine Large	intestine
40	chr5:142432600-142446400	Strong transcription	Primary T cells from cord blood	blood
41	chr5:142432800-142437400	Weak transcription	ES-I3 Cell Line	embryonic stem cell
42	chr5:142432800-142439400	Strong transcription	Primary neutrophils fromperipheralblood	blood
43	chr5:142433000-142436800	Weak transcription	Fetal Muscle Leg	muscle
44	chr5:142433000-142438600	Weak transcription	Right Ventricle	heart
45	chr5:142433000-142440000	Weak transcription	Duodenum Smooth Muscle	Duodenum
46	chr5:142433200-142437000	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
47	chr5:142433200-142437400	Weak transcription	HUES6 Cell Line	embryonic stem cell
48	chr5:142433200-142439600	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
49	chr5:142433600-142436600	Enhancers	Pancreatic Islets	Pancreatic Islet
50	chr5:142433600-142437600	Enhancers	HSMMtube	muscle

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links