Variant report

Variant	rs4077882
Chromosome Location	chr15:93375510-93375511
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:29)
LncRNA
region (count:0)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

No data

(count:29 , 50 per page) page: 1

No.	Distal block	Cell Line	Cell type
1	chr15:93351184..93355052-chr15:93375113..93377984,5	K562	blood:
2	chr15:93372787..93376736-chr15:93445833..93447508,3	K562	blood:
3	chr15:93372869..93375694-chr15:93412741..93415071,2	MCF-7	breast:
4	chr15:93375183..93376781-chr15:93438134..93441021,2	K562	blood:
5	chr15:93375205..93376990-chr15:93441973..93445299,3	K562	blood:
6	chr1:147993679..147994391-chr15:93375284..93375837,2	NB4	blood:
7	chr15:93373770..93376434-chr15:93432824..93435125,2	MCF-7	breast:
8	chr15:93371732..93379797-chr15:93421101..93430677,25	MCF-7	breast:
9	chr15:93374901..93375720-chr20:17550388..17551082,2	NB4	blood:
10	chr15:93373507..93377167-chr15:93424435..93430746,9	K562	blood:
11	chr15:93374429..93376523-chr15:93383675..93386464,2	MCF-7	breast:
12	chr15:93372369..93377206-chr15:93423188..93427929,10	MCF-7	breast:
13	chr15:93369245..93370837-chr15:93374865..93377688,2	K562	blood:
14	chr15:93375453..93377764-chr15:93448296..93450344,2	MCF-7	breast:
15	chr12:95867516..95868078-chr15:93375326..93375884,2	NB4	blood:
16	chr14:90863357..90864090-chr15:93375283..93375884,2	NB4	blood:
17	chr15:93374902..93375714-chr6:52284604..52285326,2	HCT-116	colon:
18	chr15:93372778..93376803-chr15:93442764..93445639,4	K562	blood:
19	chr15:93374787..93377707-chr15:93400327..93404783,5	MCF-7	breast:
20	chr15:93373815..93377537-chr15:93445679..93450174,4	MCF-7	breast:
21	chr15:93373694..93377076-chr15:93424499..93428126,7	K562	blood:
22	chr15:93374832..93376702-chr15:93383011..93385007,2	K562	blood:
23	chr12:4378300..4378974-chr15:93375286..93375850,2	NB4	blood:
24	chr15:93373081..93377290-chr15:93381619..93384453,4	K562	blood:
25	chr15:93373667..93377360-chr15:93428226..93431143,5	K562	blood:
26	chr15:93351602..93357057-chr15:93373684..93377205,8	MCF-7	breast:
27	chr15:93374811..93375558-chr19:55918712..55919593,2	Hela-S3	cervix:
28	chr15:93374410..93376442-chr15:93386439..93388022,2	K562	blood:
29	chr15:93373333..93375987-chr15:93438173..93440371,2	K562	blood:

No data

Variant related genes	Relation type
ENSG00000272888	Chromatin interaction
ENSG00000258922	Chromatin interaction
ENSG00000108106	Chromatin interaction
ENSG00000212456	Chromatin interaction
ENSG00000125868	Chromatin interaction
ENSG00000198668	Chromatin interaction
ENSG00000111142	Chromatin interaction
ENSG00000173575	Chromatin interaction
ENSG00000264173	Chromatin interaction
ENSG00000185442	Chromatin interaction
ENSG00000096093	Chromatin interaction

Extended variants
information (count: 7 )
Associated
traits (count: 2 )

rSNPs within LD-proxies of this variant (count:2)

rs_ID	r²[population]
rs11636181	0.81[EUR][1000 genomes]
rs6496994	0.83[CEU][hapmap]

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	nsv904499	chr15:92914795-93472582	Bivalent Enhancer Flanking Active TSS Genic enhancers Strong transcription Active TSS Transcr. at gene 5' and 3' Weak transcription Enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA	163 gene(s)	inside rSNPs	diseases
2	nsv948738	chr15:93070742-93728147	Strong transcription Weak transcription Flanking Active TSS Enhancers Genic enhancers Active TSS Bivalent Enhancer Bivalent/Poised 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	169 gene(s)	inside rSNPs	diseases
3	nsv1049490	chr15:93134405-93591660	Enhancers Genic enhancers Weak transcription Strong transcription Active TSS ZNF genes & repeats Flanking Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	151 gene(s)	inside rSNPs	diseases
4	nsv984199	chr15:93288362-93381522	Enhancers Weak transcription Flanking Active TSS Active TSS Strong transcription ZNF genes & repeats Bivalent Enhancer Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	55 gene(s)	inside rSNPs	diseases
5	nsv530846	chr15:93323949-94030462	Active TSS Strong transcription Flanking Active TSS Enhancers Weak transcription Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	153 gene(s)	inside rSNPs	diseases

mRNA abundance (count:2)

SNP	Gene	Cis/trans	Tissue	Source
rs4077882	C15orf58	cis	cerebellum	SCAN
rs4077882	FAM174B	cis	cerebellum	SCAN

Chromatin state (count:121 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:93366400-93376000	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
2	chr15:93369200-93375800	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
3	chr15:93372600-93376400	Enhancers	iPS-15b Cell Line	embryonic stem cell
4	chr15:93372600-93377400	Enhancers	HUES6 Cell Line	embryonic stem cell
5	chr15:93373000-93376400	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
6	chr15:93373200-93376000	Weak transcription	Pancreas	Pancrea
7	chr15:93373200-93376800	Enhancers	H1 Cell Line	embryonic stem cell
8	chr15:93373200-93376800	Enhancers	ES-UCSF4 Cell Line	embryonic stem cell
9	chr15:93373400-93377000	Enhancers	Placenta Amnion	Placenta Amnion
10	chr15:93373400-93377400	Enhancers	Sigmoid Colon	Sigmoid Colon
11	chr15:93374000-93377000	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
12	chr15:93374200-93376000	Flanking Active TSS	Rectal Mucosa Donor 29	rectum
13	chr15:93374200-93376200	Flanking Active TSS	Brain Hippocampus Middle	brain
14	chr15:93374200-93376200	Flanking Active TSS	Dnd41	blood
15	chr15:93374200-93376800	Flanking Active TSS	Primary hematopoietic stem cells G-CSF-mobilized Male	--
16	chr15:93374200-93383200	Weak transcription	Lung	lung
17	chr15:93374400-93375600	Flanking Active TSS	Fetal Brain Female	brain
18	chr15:93374400-93375600	Flanking Active TSS	Rectal Mucosa Donor 31	rectum
19	chr15:93374400-93375800	Active TSS	Right Atrium	heart
20	chr15:93374400-93375800	Active TSS	Thymus	Thymus
21	chr15:93374400-93376000	Flanking Active TSS	Primary T killer memory cells from peripheral blood	blood
22	chr15:93374400-93376000	Flanking Active TSS	Liver	Liver
23	chr15:93374400-93376000	Flanking Active TSS	Fetal Thymus	thymus
24	chr15:93374400-93376200	Flanking Active TSS	Primary hematopoietic stem cells short term culture	blood
25	chr15:93374400-93376200	Flanking Active TSS	Primary T regulatory cells fromperipheralblood	blood
26	chr15:93374400-93376200	Flanking Active TSS	Duodenum Smooth Muscle	Duodenum
27	chr15:93374400-93376400	Flanking Active TSS	H9 Derived Neuron Cultured Cells	ES cell derived
28	chr15:93374400-93376400	Flanking Active TSS	Primary B cells from cord blood	blood
29	chr15:93374400-93376400	Flanking Active TSS	Primary T helper naive cells from peripheral blood	blood
30	chr15:93374400-93376400	Flanking Active TSS	Primary T helper cells PMA-I stimulated	--
31	chr15:93374400-93376400	Flanking Active TSS	Adipose Nuclei	Adipose
32	chr15:93374400-93376400	Flanking Active TSS	Rectal Smooth Muscle	rectum
33	chr15:93374400-93376600	Active TSS	Aorta	Aorta
34	chr15:93374400-93377000	Enhancers	Small Intestine	intestine
35	chr15:93374400-93377000	Flanking Active TSS	Monocytes-CD14+_RO01746	blood
36	chr15:93374600-93375800	Flanking Active TSS	Fetal Brain Male	brain
37	chr15:93374600-93376000	Flanking Active TSS	Primary T helper cells fromperipheralblood	blood
38	chr15:93374600-93376000	Flanking Active TSS	NH-A	brain
39	chr15:93374600-93376200	Flanking Active TSS	Primary B cells from peripheral blood	blood
40	chr15:93374600-93376200	Flanking Active TSS	Primary T helper memory cells from peripheral blood 2	blood
41	chr15:93374800-93375600	Flanking Active TSS	Primary T cells fromperipheralblood	blood
42	chr15:93374800-93375600	Active TSS	Cortex derived primary cultured neurospheres	brain
43	chr15:93374800-93375600	Active TSS	Psoas Muscle	Psoas
44	chr15:93374800-93375600	Active TSS	GM12878-XiMat	blood
45	chr15:93374800-93375800	Flanking Active TSS	Primary monocytes fromperipheralblood	blood
46	chr15:93374800-93375800	Flanking Active TSS	Primary T helper memory cells from peripheral blood 1	blood
47	chr15:93374800-93375800	Flanking Active TSS	Primary Natural Killer cells fromperipheralblood	blood
48	chr15:93374800-93375800	Active TSS	Foreskin Melanocyte Primary Cells skin01	Skin
49	chr15:93374800-93375800	Active TSS	Brain Anterior Caudate	brain
50	chr15:93374800-93375800	Active TSS	Pancreatic Islets	Pancreatic Islet

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links