Variant report

Variant	rs56035793
Chromosome Location	chr13:51797550-51797551
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr13:51793406..51795432-chr13:51797315..51800295,2	K562	blood:

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-SERPINE3-4	chr13:51795151-51798286	ncRnaDb_ncrna_FR376720_3

Extended variants
information (count: 12 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:9)

rs_ID	r²[population]
rs74084808	1.00[AMR][1000 genomes]
rs74084812	1.00[AMR][1000 genomes]
rs74084821	1.00[AMR][1000 genomes]
rs74084838	1.00[AMR][1000 genomes]
rs74084842	1.00[AMR][1000 genomes]
rs74084850	1.00[AMR][1000 genomes]
rs74084858	1.00[AMR][1000 genomes]
rs74084862	1.00[AMR][1000 genomes]
rs74087494	1.00[AMR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:3 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv832610	chr13:51636661-51822106	Bivalent/Poised TSS Enhancers Active TSS Weak transcription Flanking Active TSS Bivalent Enhancer Genic enhancers Flanking Bivalent TSS/Enh Strong transcription ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases
2	nsv832611	chr13:51766472-51938314	Weak transcription Enhancers Bivalent Enhancer Active TSS Flanking Active TSS Flanking Bivalent TSS/Enh Genic enhancers Strong transcription Bivalent/Poised TSS Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	13 gene(s)	inside rSNPs	diseases
3	esv3332869	chr13:51795701-51797799	Flanking Active TSS Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer Enhancers Weak transcription Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:73 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr13:51795800-51797600	Bivalent/Poised TSS	ES-I3 Cell Line	embryonic stem cell
2	chr13:51795800-51797600	Active TSS	Brain Anterior Caudate	brain
3	chr13:51795800-51797600	Bivalent/Poised TSS	Rectal Mucosa Donor 29	rectum
4	chr13:51795800-51797800	Active TSS	H1 Cell Line	embryonic stem cell
5	chr13:51795800-51797800	Bivalent/Poised TSS	Rectal Mucosa Donor 31	rectum
6	chr13:51795800-51798000	Active TSS	Fetal Brain Female	brain
7	chr13:51795800-51798400	Active TSS	H9 Cell Line	embryonic stem cell
8	chr13:51795800-51798600	Active TSS	Brain Cingulate Gyrus	brain
9	chr13:51795800-51798800	Active TSS	Brain Hippocampus Middle	brain
10	chr13:51795800-51799000	Active TSS	Brain Inferior Temporal Lobe	brain
11	chr13:51796000-51797800	Active TSS	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
12	chr13:51796000-51797800	Active TSS	HUES48 Cell Line	embryonic stem cell
13	chr13:51796000-51797800	Active TSS	iPS-20b Cell Line	embryonic stem cell
14	chr13:51796000-51797800	Active TSS	Left Ventricle	heart
15	chr13:51796000-51797800	Active TSS	Psoas Muscle	Psoas
16	chr13:51796000-51798000	Active TSS	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
17	chr13:51796000-51798000	Bivalent/Poised TSS	HUES6 Cell Line	embryonic stem cell
18	chr13:51796000-51798000	Active TSS	Colon Smooth Muscle	Colon
19	chr13:51796000-51798000	Active TSS	Rectal Smooth Muscle	rectum
20	chr13:51796000-51798600	Active TSS	iPS-15b Cell Line	embryonic stem cell
21	chr13:51796000-51798800	Active TSS	ES-WA7 Cell Line	embryonic stem cell
22	chr13:51796000-51798800	Active TSS	Brain Angular Gyrus	brain
23	chr13:51796200-51797600	Bivalent/Poised TSS	Primary T cells effector/memory enriched fromperipheralblood	blood
24	chr13:51796200-51797600	Bivalent/Poised TSS	Fetal Intestine Large	intestine
25	chr13:51796200-51797800	Bivalent/Poised TSS	Brain Germinal Matrix	brain
26	chr13:51796200-51798200	Active TSS	HUES64 Cell Line	embryonic stem cell
27	chr13:51796200-51798600	Active TSS	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
28	chr13:51796200-51798600	Active TSS	Brain Substantia Nigra	brain
29	chr13:51796400-51797600	Active TSS	ES-UCSF4 Cell Line	embryonic stem cell
30	chr13:51796400-51797600	Active TSS	Right Ventricle	heart
31	chr13:51796400-51797600	Active TSS	NHLF	lung
32	chr13:51796400-51797800	Active TSS	iPS DF 19.11 Cell Line	embryonic stem cell
33	chr13:51796400-51798000	Active TSS	iPS DF 6.9 Cell Line	embryonic stem cell
34	chr13:51796800-51797600	Active TSS	Fetal Heart	heart
35	chr13:51796800-51797600	Flanking Bivalent TSS/Enh	Fetal Muscle Leg	muscle
36	chr13:51796800-51798000	Flanking Active TSS	Adipose Nuclei	Adipose
37	chr13:51796800-51798000	Active TSS	Right Atrium	heart
38	chr13:51797000-51797600	Flanking Active TSS	Cortex derived primary cultured neurospheres	brain
39	chr13:51797000-51797600	Bivalent Enhancer	Placenta Amnion	Placenta Amnion
40	chr13:51797000-51797800	Flanking Active TSS	H9 Derived Neuron Cultured Cells	ES cell derived
41	chr13:51797000-51797800	Flanking Active TSS	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
42	chr13:51797000-51797800	Flanking Active TSS	Fetal Lung	lung
43	chr13:51797000-51797800	Flanking Bivalent TSS/Enh	Fetal Stomach	stomach
44	chr13:51797000-51797800	Flanking Active TSS	HUVEC	blood vessel
45	chr13:51797000-51798000	Active TSS	Foreskin Melanocyte Primary Cells skin01	Skin
46	chr13:51797200-51797600	Flanking Bivalent TSS/Enh	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
47	chr13:51797200-51797600	Bivalent Enhancer	Primary monocytes fromperipheralblood	blood
48	chr13:51797200-51797600	Flanking Active TSS	Ganglion Eminence derived primary cultured neurospheres	brain
49	chr13:51797200-51797600	Bivalent Enhancer	Foreskin Keratinocyte Primary Cells skin03	Skin
50	chr13:51797200-51797600	Enhancers	Liver	Liver

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links