Variant report

Variant	rs16960078
Chromosome Location	chr15:35208398-35208399
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr15:35202607..35205491-chr15:35208140..35210817,2	K562	blood:

Extended variants
information (count: 20 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:11)

rs_ID	r²[population]
rs11073072	0.93[CHD][hapmap];0.83[GIH][hapmap]
rs16959922	0.86[ASN][1000 genomes]
rs16960038	1.00[CEU][hapmap];1.00[CHB][hapmap];0.94[JPT][hapmap];0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs16960089	1.00[CEU][hapmap];0.94[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.96[AFR][1000 genomes];0.94[AMR][1000 genomes];1.00[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs16960096	0.84[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];0.88[AFR][1000 genomes];0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs62006142	0.88[ASN][1000 genomes]
rs62006143	0.85[ASN][1000 genomes]
rs62006150	0.83[AFR][1000 genomes];0.90[AMR][1000 genomes];0.98[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs62006153	0.84[AMR][1000 genomes];0.96[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs8030719	0.84[ASN][1000 genomes]
rs8033479	0.86[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:9 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	esv3350109	chr15:34668106-35534229	Strong transcription Flanking Active TSS Enhancers Bivalent/Poised TSS Active TSS Weak transcription Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent Enhancer Transcr. at gene 5' and 3' Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	64 gene(s)	inside rSNPs	diseases
2	nsv522411	chr15:34953986-35462981	Enhancers Strong transcription Active TSS Weak transcription Flanking Active TSS Flanking Bivalent TSS/Enh Genic enhancers Bivalent/Poised TSS ZNF genes & repeats Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	43 gene(s)	inside rSNPs	diseases
3	nsv457106	chr15:35049787-35227613	Strong transcription Weak transcription Enhancers Genic enhancers ZNF genes & repeats Bivalent/Poised TSS Bivalent Enhancer Flanking Active TSS Flanking Bivalent TSS/Enh Active TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases
4	nsv569153	chr15:35049787-35227613	Active TSS Strong transcription Enhancers Flanking Bivalent TSS/Enh Weak transcription ZNF genes & repeats Genic enhancers Flanking Active TSS Bivalent Enhancer Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases
5	esv2761865	chr15:35101678-35271639	Weak transcription Strong transcription Enhancers Active TSS Flanking Active TSS ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	16 gene(s)	inside rSNPs	diseases
6	nsv832967	chr15:35110102-35267906	Strong transcription Flanking Active TSS Active TSS Weak transcription ZNF genes & repeats Genic enhancers Enhancers Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	15 gene(s)	inside rSNPs	diseases
7	nsv904071	chr15:35150897-35250771	Weak transcription Strong transcription ZNF genes & repeats Enhancers Genic enhancers Flanking Active TSS Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases
8	nsv904072	chr15:35150897-35259376	Weak transcription Strong transcription Enhancers Genic enhancers ZNF genes & repeats Active TSS Flanking Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases
9	nsv569154	chr15:35165366-35259376	Weak transcription Strong transcription Enhancers Genic enhancers ZNF genes & repeats Flanking Active TSS Active TSS	TF binding region CpG island Chromatin interactive region	7 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:126 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:35140400-35221600	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
2	chr15:35186000-35212400	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
3	chr15:35186000-35212600	Strong transcription	Primary Natural Killer cells fromperipheralblood	blood
4	chr15:35186000-35213000	Strong transcription	Primary monocytes fromperipheralblood	blood
5	chr15:35186000-35220000	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
6	chr15:35186000-35220000	Weak transcription	Pancreas	Pancrea
7	chr15:35186000-35223200	Weak transcription	Gastric	stomach
8	chr15:35186000-35232000	Weak transcription	Fetal Brain Male	brain
9	chr15:35186200-35212000	Strong transcription	Primary B cells from peripheral blood	blood
10	chr15:35186200-35212400	Strong transcription	H9 Derived Neuron Cultured Cells	ES cell derived
11	chr15:35186200-35212400	Strong transcription	Liver	Liver
12	chr15:35186400-35238800	Strong transcription	Primary T helper cells fromperipheralblood	blood
13	chr15:35186600-35212200	Strong transcription	Primary T cells fromperipheralblood	blood
14	chr15:35186600-35212200	Strong transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
15	chr15:35186600-35212400	Strong transcription	HUES6 Cell Line	embryonic stem cell
16	chr15:35187200-35212000	Strong transcription	HUES64 Cell Line	embryonic stem cell
17	chr15:35187400-35212000	Strong transcription	Adipose Nuclei	Adipose
18	chr15:35191400-35212800	Strong transcription	HUES48 Cell Line	embryonic stem cell
19	chr15:35192000-35212200	Strong transcription	Primary T regulatory cells fromperipheralblood	blood
20	chr15:35192200-35211200	Strong transcription	Rectal Mucosa Donor 31	rectum
21	chr15:35192200-35212200	Strong transcription	Monocytes-CD14+_RO01746	blood
22	chr15:35192200-35212400	Strong transcription	Placenta	Placenta
23	chr15:35192400-35212000	Strong transcription	Duodenum Mucosa	Duodenum
24	chr15:35192400-35212400	Strong transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
25	chr15:35192600-35212000	Strong transcription	iPS-20b Cell Line	embryonic stem cell
26	chr15:35192600-35212400	Strong transcription	A549	lung
27	chr15:35195600-35208400	Strong transcription	Foreskin Melanocyte Primary Cells skin03	Skin
28	chr15:35196600-35211000	Strong transcription	Brain Inferior Temporal Lobe	brain
29	chr15:35197000-35211200	Strong transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
30	chr15:35197200-35211000	Strong transcription	NH-A	brain
31	chr15:35197200-35212200	Strong transcription	Primary T helper naive cells fromperipheralblood	blood
32	chr15:35197200-35212600	Strong transcription	Primary T helper cells PMA-I stimulated	--
33	chr15:35197400-35211200	Strong transcription	Duodenum Smooth Muscle	Duodenum
34	chr15:35197400-35212000	Strong transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
35	chr15:35197600-35212200	Strong transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
36	chr15:35197600-35212200	Strong transcription	Rectal Mucosa Donor 29	rectum
37	chr15:35197600-35212200	Strong transcription	Dnd41	blood
38	chr15:35197600-35238800	Strong transcription	Primary neutrophils fromperipheralblood	blood
39	chr15:35198000-35212200	Strong transcription	Fetal Adrenal Gland	Adrenal Gland
40	chr15:35198000-35220600	Strong transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
41	chr15:35198200-35211000	Strong transcription	H1 Cell Line	embryonic stem cell
42	chr15:35198200-35211400	Strong transcription	Primary T cells from cord blood	blood
43	chr15:35198200-35212200	Strong transcription	iPS-18 Cell Line	embryonic stem cell
44	chr15:35198400-35212200	Strong transcription	Primary B cells from cord blood	blood
45	chr15:35198400-35212200	Strong transcription	HUVEC	blood vessel
46	chr15:35198600-35210800	Strong transcription	Ganglion Eminence derived primary cultured neurospheres	brain
47	chr15:35198600-35211800	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
48	chr15:35198600-35212800	Strong transcription	K562	blood
49	chr15:35198800-35261200	Weak transcription	Esophagus	oesophagus
50	chr15:35199000-35209200	Weak transcription	Brain Angular Gyrus	brain

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links