Variant report

Variant	rs55937551
Chromosome Location	chr13:50680680-50680681
allele	A/C
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

TF binding
region (count:0)
CpG islands
(count:0)
Chromatin interactive
region (count:7)
LncRNA
region (count:2)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

No data

(count:7 , 50 per page) page: 1

No.	Distal block	Cell Line	Cell type
1	chr13:50679123..50681390-chr13:50691644..50694719,3	MCF-7	breast:
2	chr13:50679351..50682085-chr13:50688250..50690548,2	K562	blood:
3	chr13:50678670..50682437-chr13:50696050..50699691,4	K562	blood:
4	chr13:50679888..50682383-chr13:50685487..50687936,3	MCF-7	breast:
5	chr13:50678414..50681084-chr13:50693265..50695116,2	MCF-7	breast:
6	chr13:50651347..50654585-chr13:50679189..50682334,3	K562	blood:
7	chr13:50675965..50677737-chr13:50679197..50681160,2	K562	blood:

(count:2 , 50 per page) page: 1

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-RNASEH2B-3	chr13:50678840-50681354	NR_002605
2	lnc-RNASEH2B-3	chr13:50678840-50681354	NR_109973

No data

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

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

rs_ID	r²[population]
rs1056543	0.86[AMR][1000 genomes]
rs1853926	0.86[AMR][1000 genomes]
rs2066560	0.86[AMR][1000 genomes]
rs2066569	0.86[AMR][1000 genomes]
rs2066570	0.86[AMR][1000 genomes]
rs2066578	0.81[AFR][1000 genomes];0.86[AMR][1000 genomes]
rs2066580	0.86[AMR][1000 genomes]
rs2066582	0.81[AFR][1000 genomes];0.86[AMR][1000 genomes]
rs41284812	0.81[AFR][1000 genomes];0.86[AMR][1000 genomes]
rs41284814	0.81[AFR][1000 genomes];0.86[AMR][1000 genomes]
rs60897215	0.85[AFR][1000 genomes]
rs6561574	0.86[AMR][1000 genomes]
rs7319019	0.93[AMR][1000 genomes]
rs73491522	0.86[AMR][1000 genomes]
rs73491532	0.86[AMR][1000 genomes]
rs73494012	0.93[AMR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:5 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1035151	chr13:50513535-51167850	Weak transcription Flanking Active TSS Strong transcription Enhancers Active TSS Transcr. at gene 5' and 3' Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA	1254 gene(s)	inside rSNPs	diseases
2	esv2753964	chr13:50545399-51421199	Flanking Active TSS Enhancers Bivalent Enhancer Weak transcription Active TSS Genic enhancers Strong transcription Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA	1256 gene(s)	inside rSNPs	diseases
3	esv2753492	chr13:50550081-51461720	Enhancers Flanking Active TSS ZNF genes & repeats Genic enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh Weak transcription Strong transcription Active TSS Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA	1256 gene(s)	inside rSNPs	diseases
4	esv2752608	chr13:50550099-51054499	Weak transcription Enhancers Strong transcription Active TSS Genic enhancers Flanking Active TSS Transcr. at gene 5' and 3' Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA	1249 gene(s)	inside rSNPs	diseases
5	nsv832608	chr13:50678628-50888413	Weak transcription Enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer ZNF genes & repeats Flanking Active TSS Active TSS Genic enhancers Bivalent/Poised TSS Strong transcription Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	37 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:89 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr13:50658000-50697200	Weak transcription	HSMMtube	muscle
2	chr13:50659800-50681600	Weak transcription	Brain Cingulate Gyrus	brain
3	chr13:50659800-50697200	Weak transcription	Hela-S3	cervix
4	chr13:50671600-50689800	Weak transcription	Colonic Mucosa	Colon
5	chr13:50672000-50689400	Weak transcription	Right Ventricle	heart
6	chr13:50673000-50695600	Weak transcription	Fetal Intestine Large	intestine
7	chr13:50673200-50682600	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
8	chr13:50673600-50681000	Weak transcription	Fetal Lung	lung
9	chr13:50673600-50688400	Weak transcription	HepG2	liver
10	chr13:50673600-50690400	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
11	chr13:50673800-50681000	Weak transcription	Skeletal Muscle Male	skeletal muscle
12	chr13:50673800-50693800	Weak transcription	K562	blood
13	chr13:50673800-50697600	Weak transcription	HSMM	muscle
14	chr13:50674000-50680800	Weak transcription	Skeletal Muscle Female	skeletal muscle
15	chr13:50674000-50681400	Weak transcription	Rectal Mucosa Donor 31	rectum
16	chr13:50674000-50681400	Weak transcription	Sigmoid Colon	Sigmoid Colon
17	chr13:50674000-50681600	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
18	chr13:50674000-50684800	Weak transcription	Primary T cells fromperipheralblood	blood
19	chr13:50674000-50689400	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
20	chr13:50674000-50689400	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
21	chr13:50674000-50689600	Weak transcription	Aorta	Aorta
22	chr13:50674000-50693800	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
23	chr13:50674000-50695000	Weak transcription	Fetal Muscle Leg	muscle
24	chr13:50674000-50695400	Weak transcription	Fetal Muscle Trunk	muscle
25	chr13:50674000-50695600	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
26	chr13:50674000-50697200	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
27	chr13:50674000-50697600	Weak transcription	Esophagus	oesophagus
28	chr13:50674200-50689400	Weak transcription	Left Ventricle	heart
29	chr13:50674200-50695400	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
30	chr13:50674600-50695400	Weak transcription	Fetal Intestine Small	intestine
31	chr13:50676800-50681200	Weak transcription	Cortex derived primary cultured neurospheres	brain
32	chr13:50676800-50695800	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
33	chr13:50677600-50682200	Enhancers	Primary T helper memory cells from peripheral blood 2	blood
34	chr13:50677600-50682800	Enhancers	Primary B cells from peripheral blood	blood
35	chr13:50678000-50689600	Weak transcription	Liver	Liver
36	chr13:50678600-50682200	Enhancers	Primary T helper cells fromperipheralblood	blood
37	chr13:50678800-50682200	Enhancers	iPS-15b Cell Line	embryonic stem cell
38	chr13:50679200-50680800	Weak transcription	HUES6 Cell Line	embryonic stem cell
39	chr13:50679200-50681600	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
40	chr13:50679200-50682200	Enhancers	Primary T helper naive cells fromperipheralblood	blood
41	chr13:50679200-50688800	Weak transcription	Brain Inferior Temporal Lobe	brain
42	chr13:50679200-50697200	Weak transcription	NH-A	brain
43	chr13:50679400-50681200	Weak transcription	Osteobl	bone
44	chr13:50679400-50681400	Weak transcription	H1 Cell Line	embryonic stem cell
45	chr13:50679400-50681400	Weak transcription	H9 Cell Line	embryonic stem cell
46	chr13:50679400-50681400	Weak transcription	NHDF-Ad	bronchial
47	chr13:50679400-50685400	Enhancers	Primary hematopoietic stem cells	blood
48	chr13:50679400-50688600	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
49	chr13:50679400-50691000	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
50	chr13:50679600-50682000	Enhancers	Primary T helper memory cells from peripheral blood 1	blood

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links