Variant report

Variant	rs8027826
Chromosome Location	chr15:99985650-99985651
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	chr15:99981264..99984715-chr15:99985641..99987973,4	MCF-7	breast:
2	chr15:99984466..99986504-chr15:100104174..100107057,2	K562	blood:

Variant related genes	Relation type
ENSG00000068305	Chromatin interaction

Extended variants
information (count: 21 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:3)

rs_ID	r²[population]
rs12050849	0.83[CHD][hapmap]
rs4965492	0.80[AMR][1000 genomes];0.94[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs8042934	0.82[MEX][hapmap]

Variant overlapped rSNPs/rCNVs (count:18 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1055008	chr15:99477144-100019861	Enhancers Weak transcription Strong transcription Flanking Active TSS Genic enhancers ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh Active TSS Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	46 gene(s)	inside rSNPs	diseases
2	nsv904543	chr15:99513231-99991506	Weak transcription Flanking Active TSS Enhancers Strong transcription Bivalent Enhancer Active TSS Flanking Bivalent TSS/Enh Genic enhancers ZNF genes & repeats Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	45 gene(s)	inside rSNPs	diseases
3	nsv533926	chr15:99519820-99997114	Enhancers Active TSS Weak transcription Bivalent Enhancer Flanking Active TSS Strong transcription Bivalent/Poised TSS Flanking Bivalent TSS/Enh Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	45 gene(s)	inside rSNPs	diseases
4	nsv915926	chr15:99519820-100138705	Active TSS Enhancers Weak transcription Flanking Bivalent TSS/Enh Strong transcription Flanking Active TSS Genic enhancers Bivalent Enhancer Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	55 gene(s)	inside rSNPs	diseases
5	nsv817289	chr15:99621061-100138705	Weak transcription Flanking Active TSS Enhancers ZNF genes & repeats Strong transcription Bivalent/Poised TSS Active TSS Genic enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	44 gene(s)	inside rSNPs	diseases
6	nsv431411	chr15:99621061-100143999	Enhancers Flanking Active TSS Weak transcription Active TSS Bivalent/Poised TSS Strong transcription Genic enhancers ZNF genes & repeats Bivalent Enhancer Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	44 gene(s)	inside rSNPs	diseases
7	nsv904546	chr15:99696046-100166300	Flanking Active TSS Weak transcription Enhancers Bivalent Enhancer Strong transcription Active TSS ZNF genes & repeats Genic enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	41 gene(s)	inside rSNPs	diseases
8	nsv1036346	chr15:99752391-100365458	Flanking Bivalent TSS/Enh Flanking Active TSS Strong transcription Enhancers Weak transcription 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	47 gene(s)	inside rSNPs	diseases
9	nsv542520	chr15:99752391-100365458	Enhancers Flanking Active TSS Weak transcription Active TSS Strong transcription Genic enhancers ZNF genes & repeats Bivalent Enhancer 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	47 gene(s)	inside rSNPs	diseases
10	nsv1051560	chr15:99837102-100124483	Enhancers Flanking Active TSS Weak transcription Active TSS ZNF genes & repeats Strong transcription Bivalent Enhancer Genic enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	19 gene(s)	inside rSNPs	diseases
11	nsv817201	chr15:99839238-100537341	Weak transcription Strong transcription Flanking Active TSS Enhancers Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Genic enhancers Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	36 gene(s)	inside rSNPs	diseases
12	nsv904549	chr15:99940221-99991506	Enhancers Weak transcription Flanking Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Genic enhancers Bivalent/Poised TSS Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
13	nsv519800	chr15:99950772-99987109	Enhancers Flanking Active TSS Bivalent Enhancer Weak transcription Flanking Bivalent TSS/Enh Active TSS Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
14	nsv904556	chr15:99956954-99987109	Enhancers Weak transcription Flanking Active TSS Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
15	nsv904557	chr15:99956954-99991506	Weak transcription Flanking Active TSS Bivalent Enhancer Enhancers Flanking Bivalent TSS/Enh Active TSS Genic enhancers Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
16	nsv519319	chr15:99972661-99991506	Flanking Bivalent TSS/Enh Enhancers Flanking Active TSS Weak transcription Bivalent Enhancer Active TSS Genic enhancers Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region	2 gene(s)	inside rSNPs	diseases
17	nsv570728	chr15:99973369-99986764	Flanking Active TSS Enhancers Weak transcription Bivalent Enhancer Active TSS Flanking Bivalent TSS/Enh Genic enhancers	TF binding region CpG island Chromatin interactive region	2 gene(s)	inside rSNPs	diseases
18	nsv1050527	chr15:99983054-100035436	Weak transcription Enhancers Flanking Active TSS Active TSS Bivalent Enhancer ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh Genic enhancers	TF binding region CpG island Chromatin interactive region	2 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs8027826	LRRC50	trans	cerebellum	SCAN

Chromatin state (count:64 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:99979200-99995800	Enhancers	Fetal Thymus	thymus
2	chr15:99979400-99987000	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
3	chr15:99979400-99987400	Weak transcription	HUES6 Cell Line	embryonic stem cell
4	chr15:99980800-99987600	Enhancers	Thymus	Thymus
5	chr15:99981200-99989000	Enhancers	Primary T killer naive cells fromperipheralblood	blood
6	chr15:99981200-99990800	Enhancers	Primary T helper cells PMA-I stimulated	--
7	chr15:99981200-99991000	Enhancers	Primary T cells from cord blood	blood
8	chr15:99982000-99985800	Enhancers	Primary T helper memory cells from peripheral blood 2	blood
9	chr15:99982000-99986200	Enhancers	Primary T helper cells fromperipheralblood	blood
10	chr15:99982000-99986400	Enhancers	Primary T helper naive cells fromperipheralblood	blood
11	chr15:99982000-99986600	Enhancers	Primary T cells fromperipheralblood	blood
12	chr15:99982200-99985800	Enhancers	Primary T helper naive cells from peripheral blood	blood
13	chr15:99982200-99986000	Enhancers	Primary B cells from peripheral blood	blood
14	chr15:99982400-99990200	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
15	chr15:99983400-99985800	Enhancers	Adipose Nuclei	Adipose
16	chr15:99983400-99987000	Weak transcription	Colonic Mucosa	Colon
17	chr15:99983400-99987200	Weak transcription	ES-I3 Cell Line	embryonic stem cell
18	chr15:99983400-99988400	Weak transcription	Fetal Kidney	kidney
19	chr15:99983400-99991600	Weak transcription	GM12878-XiMat	blood
20	chr15:99983400-99992600	Weak transcription	Fetal Lung	lung
21	chr15:99983400-99993600	Weak transcription	Duodenum Smooth Muscle	Duodenum
22	chr15:99983600-99986800	Weak transcription	Pancreas	Pancrea
23	chr15:99983600-99986800	Weak transcription	Placenta Amnion	Placenta Amnion
24	chr15:99983600-99987000	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
25	chr15:99983600-99988000	Weak transcription	Aorta	Aorta
26	chr15:99983600-99990800	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
27	chr15:99983600-99991800	Weak transcription	Sigmoid Colon	Sigmoid Colon
28	chr15:99983600-99992800	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
29	chr15:99983600-99993200	Weak transcription	Psoas Muscle	Psoas
30	chr15:99983800-99986800	Enhancers	Brain Germinal Matrix	brain
31	chr15:99984000-99986000	Enhancers	Cortex derived primary cultured neurospheres	brain
32	chr15:99984000-99986200	Enhancers	Primary T killer memory cells from peripheral blood	blood
33	chr15:99984000-99987000	Enhancers	Dnd41	blood
34	chr15:99984200-99986800	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
35	chr15:99984200-99986800	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
36	chr15:99984200-99986800	Weak transcription	Lung	lung
37	chr15:99984200-99987200	Weak transcription	Right Ventricle	heart
38	chr15:99984200-99987600	Weak transcription	Esophagus	oesophagus
39	chr15:99984400-99985800	Enhancers	Primary T helper 17 cells PMA-I stimulated	--
40	chr15:99984400-99986800	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
41	chr15:99984400-99988000	Weak transcription	HSMMtube	muscle
42	chr15:99984400-99988200	Weak transcription	Brain Cingulate Gyrus	brain
43	chr15:99984400-99988400	Weak transcription	Hela-S3	cervix
44	chr15:99984400-99989600	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
45	chr15:99984400-99990000	Weak transcription	Brain Anterior Caudate	brain
46	chr15:99984400-99991200	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
47	chr15:99984400-99992400	Weak transcription	Muscle Satellite Cultured Cells	--
48	chr15:99984400-99992600	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
49	chr15:99984600-99987400	Weak transcription	Skeletal Muscle Male	skeletal muscle
50	chr15:99984600-99987600	Weak transcription	Rectal Smooth Muscle	rectum

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links