Variant report

Variant	rs2054096
Chromosome Location	chr15:59008843-59008844
allele	A/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr15:59007785..59010313-chr15:59010988..59013487,2	K562	blood:
2	chr15:59007785..59010098-chr15:59010167..59012488,3	K562	blood:
3	chr15:59004920..59006793-chr15:59008060..59010372,2	K562	blood:

Extended variants
information (count: 17 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:12)

rs_ID	r²[population]
rs11855190	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs28391588	0.91[JPT][hapmap];0.93[YRI][hapmap]
rs4238331	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.96[YRI][hapmap];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs7163515	0.95[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.87[YRI][hapmap];0.99[AMR][1000 genomes];0.96[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs7164844	0.82[JPT][hapmap]
rs7164954	0.80[ASN][1000 genomes]
rs7170538	0.82[JPT][hapmap]
rs7183504	0.88[AFR][1000 genomes];0.85[ASN][1000 genomes]
rs8023706	0.91[JPT][hapmap];0.93[YRI][hapmap]
rs8023946	0.91[AMR][1000 genomes];0.91[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs8027998	0.86[JPT][hapmap];0.96[YRI][hapmap];0.84[ASN][1000 genomes]
rs8039696	1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];0.96[ASN][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	nsv1051058	chr15:58519922-59092530	Strong transcription Weak transcription Enhancers Flanking Active TSS ZNF genes & repeats Active TSS Genic enhancers Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	50 gene(s)	inside rSNPs	diseases
2	nsv542401	chr15:58519922-59092530	Strong transcription Weak transcription Active TSS Flanking Active TSS Enhancers Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	50 gene(s)	inside rSNPs	diseases
3	esv34110	chr15:58949991-59381634	Weak transcription Bivalent Enhancer Strong transcription Enhancers Active TSS Flanking Active TSS ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	87 gene(s)	inside rSNPs	diseases
4	esv1843037	chr15:59005922-59115159	Enhancers Weak transcription Flanking Active TSS Strong transcription Transcr. at gene 5' and 3' Active TSS Bivalent/Poised TSS ZNF genes & repeats Genic enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	37 gene(s)	inside rSNPs	diseases
5	esv1826703	chr15:59005922-59213678	Flanking Active TSS Enhancers Strong transcription Weak transcription Active TSS Genic enhancers Bivalent Enhancer ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	44 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:104 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:58977200-59039200	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
2	chr15:58983200-59016600	Weak transcription	Small Intestine	intestine
3	chr15:58986600-59016600	Weak transcription	Stomach Smooth Muscle	stomach
4	chr15:58987400-59012000	Weak transcription	Rectal Smooth Muscle	rectum
5	chr15:58989800-59016800	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
6	chr15:58990000-59023400	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
7	chr15:58991800-59012200	Weak transcription	Brain Inferior Temporal Lobe	brain
8	chr15:58992000-59009000	Weak transcription	Placenta	Placenta
9	chr15:58992000-59010800	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
10	chr15:58992000-59015800	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
11	chr15:58992000-59023000	Weak transcription	Esophagus	oesophagus
12	chr15:58992000-59023800	Weak transcription	Aorta	Aorta
13	chr15:58992400-59011600	Weak transcription	HUVEC	blood vessel
14	chr15:58992400-59012000	Weak transcription	Brain Anterior Caudate	brain
15	chr15:58992600-59016600	Weak transcription	Duodenum Smooth Muscle	Duodenum
16	chr15:58992600-59021000	Weak transcription	Primary T killer memory cells from peripheral blood	blood
17	chr15:58993200-59010200	Weak transcription	Rectal Mucosa Donor 31	rectum
18	chr15:58993200-59010800	Weak transcription	K562	blood
19	chr15:58993400-59010600	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
20	chr15:58994400-59012400	Weak transcription	Cortex derived primary cultured neurospheres	brain
21	chr15:58994400-59016400	Weak transcription	Adipose Nuclei	Adipose
22	chr15:58996000-59016600	Weak transcription	Colonic Mucosa	Colon
23	chr15:58996200-59016800	Weak transcription	Psoas Muscle	Psoas
24	chr15:58996600-59016600	Weak transcription	NHLF	lung
25	chr15:58996600-59016800	Weak transcription	Primary hematopoietic stem cells	blood
26	chr15:58996800-59010800	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
27	chr15:58998200-59009400	Weak transcription	Hela-S3	cervix
28	chr15:58998400-59016600	Weak transcription	Osteobl	bone
29	chr15:58998600-59016600	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
30	chr15:58998600-59016800	Weak transcription	Sigmoid Colon	Sigmoid Colon
31	chr15:58999000-59013600	Weak transcription	Right Ventricle	heart
32	chr15:58999000-59023800	Weak transcription	Gastric	stomach
33	chr15:59000600-59012200	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
34	chr15:59002400-59016200	Weak transcription	Left Ventricle	heart
35	chr15:59003000-59010000	Strong transcription	HSMM	muscle
36	chr15:59003400-59016400	Weak transcription	Muscle Satellite Cultured Cells	--
37	chr15:59003800-59012400	Strong transcription	Fetal Thymus	thymus
38	chr15:59003800-59016600	Weak transcription	NH-A	brain
39	chr15:59004000-59013000	Strong transcription	Foreskin Melanocyte Primary Cells skin03	Skin
40	chr15:59004200-59015600	Weak transcription	Colon Smooth Muscle	Colon
41	chr15:59004600-59010200	Strong transcription	Monocytes-CD14+_RO01746	blood
42	chr15:59005000-59009800	Strong transcription	Breast Myoepithelial Primary Cells	Breast
43	chr15:59005000-59010000	Strong transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
44	chr15:59005000-59010200	Strong transcription	HUES64 Cell Line	embryonic stem cell
45	chr15:59005000-59010400	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
46	chr15:59005200-59009800	Strong transcription	ES-UCSF4 Cell Line	embryonic stem cell
47	chr15:59005200-59009800	Strong transcription	NHDF-Ad	bronchial
48	chr15:59005200-59022400	Weak transcription	Fetal Muscle Leg	muscle
49	chr15:59005600-59009800	Strong transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
50	chr15:59005600-59021600	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links