Variant report

Variant	rs17254436
Chromosome Location	chr14:21323810-21323811
allele	C/T
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:11)
LncRNA
region (count:0)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

No data

(count:11 , 50 per page) page: 1

No.	Distal block	Cell Line	Cell type
1	chr14:21304507..21305551-chr14:21323522..21324508,13	MCF-7	breast:
2	chr14:21307828..21309542-chr14:21323768..21326232,2	MCF-7	breast:
3	chr14:21314410..21316763-chr14:21323540..21325597,2	K562	blood:
4	chr14:21155907..21157723-chr14:21323708..21325549,2	MCF-7	breast:
5	chr14:21306953..21309140-chr14:21323464..21326358,2	K562	blood:
6	chr14:21165600..21167287-chr14:21323145..21324514,10	MCF-7	breast:
7	chr14:21304226..21305559-chr14:21323555..21324321,5	MCF-7	breast:
8	chr14:21225835..21226856-chr14:21323577..21324461,4	K562	blood:
9	chr14:21165305..21166567-chr14:21323518..21324499,14	K562	blood:
10	chr14:21165605..21166547-chr14:21323286..21324779,12	MCF-7	breast:
11	chr14:21302824..21303739-chr14:21323545..21324477,3	MCF-7	breast:

No data

Variant related genes	Relation type
ENSG00000258818	Chromatin interaction
ENSG00000214274	Chromatin interaction

Extended variants
information (count: 34 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:27)

rs_ID	r²[population]
rs10139443	0.82[AMR][1000 genomes];0.93[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs10140301	0.84[AFR][1000 genomes];0.86[AMR][1000 genomes];1.00[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs10144045	0.84[AFR][1000 genomes];0.90[AMR][1000 genomes];1.00[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs10148191	0.82[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs10148209	0.82[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs10872858	0.83[AMR][1000 genomes];0.85[ASN][1000 genomes]
rs11623919	0.85[ASN][1000 genomes]
rs11845945	0.85[AMR][1000 genomes];1.00[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs11850614	0.82[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs12878116	0.85[AMR][1000 genomes];1.00[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs17182206	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs17254450	0.94[ASN][1000 genomes]
rs17254457	0.93[ASN][1000 genomes]
rs1889771	0.93[ASN][1000 genomes]
rs1889772	0.93[ASN][1000 genomes]
rs28398970	0.93[ASN][1000 genomes]
rs28429822	0.82[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs28446693	0.82[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs28522687	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs28580637	0.82[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs61978607	0.93[ASN][1000 genomes]
rs68014001	0.82[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs8011501	0.93[ASN][1000 genomes]
rs8011664	0.83[EUR][1000 genomes]
rs8014985	0.90[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs8016193	0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs8020174	0.87[AFR][1000 genomes];0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:7 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1043923	chr14:20338742-21336425	Enhancers Strong transcription Weak transcription Flanking Bivalent TSS/Enh Active TSS Flanking Active TSS Genic enhancers ZNF genes & repeats Bivalent/Poised TSS Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	203 gene(s)	inside rSNPs	diseases
2	nsv541970	chr14:20338742-21336425	Strong transcription Enhancers Flanking Active TSS Weak transcription Genic enhancers Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent Enhancer Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	203 gene(s)	inside rSNPs	diseases
3	nsv1045505	chr14:21168839-21337972	Weak transcription Flanking Active TSS Enhancers Active TSS Strong transcription ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	15 gene(s)	inside rSNPs	diseases
4	esv2758349	chr14:21216108-21471614	Active TSS Flanking Active TSS Enhancers Bivalent Enhancer ZNF genes & repeats Weak transcription Flanking Bivalent TSS/Enh Bivalent/Poised TSS Genic enhancers Strong transcription Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	41 gene(s)	inside rSNPs	diseases
5	esv2759972	chr14:21216108-21471614	Weak transcription Enhancers Genic enhancers Flanking Active TSS Active TSS Strong transcription Bivalent/Poised TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	41 gene(s)	inside rSNPs	diseases
6	nsv427936	chr14:21216108-21531783	Flanking Active TSS Active TSS Weak transcription Enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer Strong transcription Transcr. at gene 5' and 3' Genic enhancers ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA	50 gene(s)	inside rSNPs	diseases
7	nsv428293	chr14:21216108-21531783	Enhancers Flanking Active TSS Weak transcription Genic enhancers Flanking Bivalent TSS/Enh Active TSS Strong transcription Bivalent Enhancer Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA	50 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:45 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr14:21317200-21325800	Weak transcription	Rectal Mucosa Donor 31	rectum
2	chr14:21317400-21326000	Weak transcription	Fetal Intestine Small	intestine
3	chr14:21317800-21325800	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
4	chr14:21318000-21325600	Weak transcription	HUES48 Cell Line	embryonic stem cell
5	chr14:21323200-21324400	Enhancers	A549	lung
6	chr14:21323400-21324400	Enhancers	Brain Hippocampus Middle	brain
7	chr14:21323600-21324000	Enhancers	ES-I3 Cell Line	embryonic stem cell
8	chr14:21323600-21324000	Enhancers	H1 Cell Line	embryonic stem cell
9	chr14:21323600-21324000	Enhancers	H9 Cell Line	embryonic stem cell
10	chr14:21323600-21324000	Enhancers	HUES64 Cell Line	embryonic stem cell
11	chr14:21323600-21324000	Enhancers	iPS-15b Cell Line	embryonic stem cell
12	chr14:21323600-21324000	Enhancers	Breast Myoepithelial Primary Cells	Breast
13	chr14:21323600-21324000	Enhancers	Primary monocytes fromperipheralblood	blood
14	chr14:21323600-21324000	Enhancers	Primary B cells from peripheral blood	blood
15	chr14:21323600-21324000	Enhancers	Cortex derived primary cultured neurospheres	brain
16	chr14:21323600-21324000	Enhancers	Liver	Liver
17	chr14:21323600-21324000	Enhancers	Brain Angular Gyrus	brain
18	chr14:21323600-21324000	Enhancers	Brain Anterior Caudate	brain
19	chr14:21323600-21324000	Enhancers	Brain Cingulate Gyrus	brain
20	chr14:21323600-21324000	Enhancers	Brain Inferior Temporal Lobe	brain
21	chr14:21323600-21324000	Flanking Active TSS	Brain Dorsolateral Prefrontal Cortex	brain
22	chr14:21323600-21324000	Enhancers	Brain Substantia Nigra	brain
23	chr14:21323600-21324000	Enhancers	Fetal Adrenal Gland	Adrenal Gland
24	chr14:21323600-21324000	Enhancers	Fetal Heart	heart
25	chr14:21323600-21324000	Enhancers	Pancreas	Pancrea
26	chr14:21323600-21324000	Enhancers	Rectal Mucosa Donor 29	rectum
27	chr14:21323600-21324000	Enhancers	Stomach Mucosa	stomach
28	chr14:21323600-21324000	Enhancers	HepG2	liver
29	chr14:21323600-21324000	Enhancers	Monocytes-CD14+_RO01746	blood
30	chr14:21323600-21324400	Enhancers	Foreskin Melanocyte Primary Cells skin01	Skin
31	chr14:21323600-21324400	Enhancers	Spleen	Spleen
32	chr14:21323600-21324400	Enhancers	K562	blood
33	chr14:21323800-21324000	Enhancers	ES-WA7 Cell Line	embryonic stem cell
34	chr14:21323800-21324000	Enhancers	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
35	chr14:21323800-21324000	Enhancers	H9 Derived Neuron Cultured Cells	ES cell derived
36	chr14:21323800-21324000	Enhancers	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
37	chr14:21323800-21324000	Enhancers	HUES6 Cell Line	embryonic stem cell
38	chr14:21323800-21324000	Flanking Active TSS	iPS-18 Cell Line	embryonic stem cell
39	chr14:21323800-21324000	Enhancers	Primary Natural Killer cells fromperipheralblood	blood
40	chr14:21323800-21324000	Bivalent Enhancer	Muscle Satellite Cultured Cells	--
41	chr14:21323800-21324000	Enhancers	Duodenum Mucosa	Duodenum
42	chr14:21323800-21324000	Enhancers	Fetal Intestine Large	intestine
43	chr14:21323800-21324000	Enhancers	Placenta	Placenta
44	chr14:21323800-21324000	Enhancers	Psoas Muscle	Psoas
45	chr14:21323800-21324400	Enhancers	Skeletal Muscle Female	skeletal muscle

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links