Variant report

Variant	rs60353606
Chromosome Location	chr14:31029991-31029992
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr14:31029408..31031753-chr14:31090278..31092487,2	K562	blood:
2	chr14:31027330..31031100-chr14:31087785..31093139,9	MCF-7	breast:
3	chr14:31027121..31031753-chr14:31090278..31094067,6	K562	blood:
4	chr14:31028766..31030922-chr14:31085217..31087715,2	MCF-7	breast:

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-PRKD1-2	chr14:31029943-31030041	ENSG00000257636.1

Variant related genes	Relation type
ENSG00000092108	Chromatin interaction

Extended variants
information (count: 59 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:56)

rs_ID	r²[population]
rs12100621	1.00[AMR][1000 genomes]
rs57216699	0.87[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs57549139	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs57618174	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs57677010	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs58653311	0.83[AFR][1000 genomes]
rs60350877	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs60362029	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs60727186	0.83[AFR][1000 genomes]
rs73251132	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73251134	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73251145	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73251146	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73251151	0.87[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73251156	0.87[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73251167	0.81[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73251168	1.00[AMR][1000 genomes]
rs73251169	0.87[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73251177	0.87[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73251179	0.87[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73251181	0.87[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73251184	0.87[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73251188	0.87[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73251199	0.83[AFR][1000 genomes]
rs73253017	0.83[AFR][1000 genomes]
rs73254546	0.83[AFR][1000 genomes]
rs73254548	0.83[AFR][1000 genomes]
rs73254552	0.83[AFR][1000 genomes]
rs73254553	0.83[AFR][1000 genomes]
rs73254554	0.83[AFR][1000 genomes]
rs73254555	0.83[AFR][1000 genomes]
rs73254556	0.83[AFR][1000 genomes]
rs73254560	0.83[AFR][1000 genomes]
rs73254565	0.83[AFR][1000 genomes]
rs73254568	0.83[AFR][1000 genomes]
rs73254580	0.83[AFR][1000 genomes]
rs73254583	0.83[AFR][1000 genomes]
rs73254586	0.83[AFR][1000 genomes]
rs73254588	0.83[AFR][1000 genomes]
rs73254589	0.83[AFR][1000 genomes]
rs73255979	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73255992	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73258111	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73258118	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73258119	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73264309	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73264311	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73264321	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73264329	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73264330	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73264333	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73264341	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73264346	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73264352	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73264358	1.00[AMR][1000 genomes]
rs73264362	1.00[AFR][1000 genomes];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	nsv564169	chr14:30819087-31541494	Strong transcription Genic enhancers ZNF genes & repeats Enhancers Weak transcription Active TSS Flanking Bivalent TSS/Enh Flanking Active TSS Bivalent/Poised TSS Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	50 gene(s)	inside rSNPs	diseases
2	nsv1036419	chr14:30969616-31224226	Weak transcription Strong transcription Active TSS Flanking Active TSS Enhancers Genic enhancers Bivalent Enhancer Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	22 gene(s)	inside rSNPs	diseases
3	nsv901581	chr14:30978745-31585289	Strong transcription Weak transcription Enhancers Genic enhancers Active TSS Bivalent Enhancer Bivalent/Poised TSS Flanking Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	50 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:116 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr14:31027600-31030000	Active TSS	Foreskin Fibroblast Primary Cells skin02	Skin
2	chr14:31027600-31030000	Active TSS	Fetal Brain Male	brain
3	chr14:31027600-31030000	Active TSS	Fetal Brain Female	brain
4	chr14:31027600-31030000	Active TSS	Right Atrium	heart
5	chr14:31027600-31030000	Active TSS	NHLF	lung
6	chr14:31027600-31030200	Active TSS	H1 Cell Line	embryonic stem cell
7	chr14:31027600-31030600	Active TSS	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
8	chr14:31027600-31031000	Active TSS	Foreskin Fibroblast Primary Cells skin01	Skin
9	chr14:31027800-31030000	Active TSS	H9 Cell Line	embryonic stem cell
10	chr14:31027800-31030000	Active TSS	Rectal Mucosa Donor 29	rectum
11	chr14:31027800-31030000	Active TSS	Thymus	Thymus
12	chr14:31027800-31030000	Active TSS	HMEC	breast
13	chr14:31027800-31030200	Active TSS	HUES6 Cell Line	embryonic stem cell
14	chr14:31027800-31030400	Active TSS	K562	blood
15	chr14:31027800-31030600	Active TSS	IMR90 fetal lung fibroblasts Cell Line	lung
16	chr14:31028000-31030000	Active TSS	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
17	chr14:31028000-31030000	Active TSS	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
18	chr14:31028000-31030000	Active TSS	Fetal Thymus	thymus
19	chr14:31028000-31030000	Active TSS	HSMM	muscle
20	chr14:31028200-31030000	Active TSS	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
21	chr14:31028200-31030000	Active TSS	GM12878-XiMat	blood
22	chr14:31029000-31030000	Flanking Active TSS	Primary T helper naive cells fromperipheralblood	blood
23	chr14:31029000-31030000	Enhancers	Stomach Mucosa	stomach
24	chr14:31029000-31030000	Flanking Active TSS	Monocytes-CD14+_RO01746	blood
25	chr14:31029000-31030200	Flanking Active TSS	Primary T cells from cord blood	blood
26	chr14:31029000-31030400	Flanking Active TSS	Duodenum Mucosa	Duodenum
27	chr14:31029000-31071800	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
28	chr14:31029200-31030000	Flanking Active TSS	Primary hematopoietic stem cells G-CSF-mobilized Female	--
29	chr14:31029200-31030000	Flanking Active TSS	Pancreatic Islets	Pancreatic Islet
30	chr14:31029200-31030400	Enhancers	Primary Natural Killer cells fromperipheralblood	blood
31	chr14:31029200-31030400	Enhancers	Colon Smooth Muscle	Colon
32	chr14:31029200-31031800	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
33	chr14:31029200-31031800	Weak transcription	Pancreas	Pancrea
34	chr14:31029200-31033600	Weak transcription	Lung	lung
35	chr14:31029200-31034400	Weak transcription	Placenta Amnion	Placenta Amnion
36	chr14:31029200-31042200	Weak transcription	Sigmoid Colon	Sigmoid Colon
37	chr14:31029200-31071800	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
38	chr14:31029400-31030000	Enhancers	Brain Anterior Caudate	brain
39	chr14:31029400-31030000	Weak transcription	Brain Inferior Temporal Lobe	brain
40	chr14:31029400-31030000	Weak transcription	Ovary	ovary
41	chr14:31029400-31030000	Weak transcription	Psoas Muscle	Psoas
42	chr14:31029400-31030000	Weak transcription	Small Intestine	intestine
43	chr14:31029400-31030200	Enhancers	Primary monocytes fromperipheralblood	blood
44	chr14:31029400-31030200	Flanking Active TSS	Primary T regulatory cells fromperipheralblood	blood
45	chr14:31029400-31030200	Enhancers	Brain Angular Gyrus	brain
46	chr14:31029400-31030200	Enhancers	Skeletal Muscle Male	skeletal muscle
47	chr14:31029400-31030200	Flanking Active TSS	Osteobl	bone
48	chr14:31029400-31030400	Flanking Active TSS	HUES64 Cell Line	embryonic stem cell
49	chr14:31029400-31030400	Flanking Active TSS	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
50	chr14:31029400-31030400	Enhancers	Primary neutrophils fromperipheralblood	blood

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links