Variant report

Variant	rs16867528
Chromosome Location	chr5:15607448-15607449
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-MARCH11-2	chr5:15607269-15607457	ENSG00000250250.1
2	lnc-MARCH11-2	chr5:15607269-15607455	NR_109945

Extended variants
information (count: 28 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:20)

rs_ID	r²[population]
rs13176349	0.94[ASN][1000 genomes]
rs1429030	1.00[ASN][1000 genomes]
rs1429031	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4413532	0.86[AFR][1000 genomes];0.88[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs4587075	0.94[ASN][1000 genomes]
rs4701636	1.00[AMR][1000 genomes];0.85[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs4702088	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs4702089	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.92[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs4702091	0.94[AMR][1000 genomes];0.88[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs4702092	0.86[AFR][1000 genomes];0.88[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs4702094	0.86[AFR][1000 genomes];0.85[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs4702095	0.88[ASN][1000 genomes]
rs4702096	0.85[ASN][1000 genomes]
rs4702097	0.88[ASN][1000 genomes]
rs57755609	0.86[AFR][1000 genomes];0.94[ASN][1000 genomes]
rs57833436	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes];0.85[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs59821040	0.89[AMR][1000 genomes];0.92[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs60543964	0.86[AFR][1000 genomes];0.92[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs60892211	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs73068992	0.86[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:8 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv516929	chr5:15087791-15870300	Enhancers Active TSS Flanking Active TSS Weak transcription ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS Strong transcription Flanking Bivalent TSS/Enh Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	13 gene(s)	inside rSNPs	diseases
2	nsv1023068	chr5:15095221-15863583	Enhancers Weak transcription Active TSS Strong transcription Flanking Active TSS ZNF genes & repeats Genic enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	13 gene(s)	inside rSNPs	diseases
3	nsv869040	chr5:15097602-15866117	Active TSS Weak transcription Enhancers Strong transcription Genic enhancers ZNF genes & repeats Flanking Active TSS Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	13 gene(s)	inside rSNPs	diseases
4	nsv530222	chr5:15151662-15851485	Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats Active TSS Bivalent/Poised TSS Strong transcription Flanking Bivalent TSS/Enh Genic enhancers Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases
5	nsv830214	chr5:15589809-15791032	Weak transcription Enhancers Active TSS Flanking Active TSS ZNF genes & repeats Strong transcription Genic enhancers Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
6	esv3507774	chr5:15593461-15822407	Enhancers Weak transcription ZNF genes & repeats Flanking Active TSS Strong transcription Active TSS Genic enhancers Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
7	esv3507776	chr5:15593461-15822407	Weak transcription Enhancers Active TSS ZNF genes & repeats Flanking Active TSS Strong transcription Genic enhancers Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
8	nsv4732	chr5:15598325-15636520	Enhancers Weak transcription Genic enhancers Strong transcription Flanking Active TSS ZNF genes & repeats Active TSS	TF binding region Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:32 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr5:15585000-15630200	Weak transcription	Breast Myoepithelial Primary Cells	Breast
2	chr5:15586000-15619800	Weak transcription	NHLF	lung
3	chr5:15588400-15612600	Weak transcription	NHDF-Ad	bronchial
4	chr5:15593400-15633400	Weak transcription	Fetal Lung	lung
5	chr5:15595200-15607800	Weak transcription	Fetal Kidney	kidney
6	chr5:15600600-15645400	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
7	chr5:15601800-15609400	Weak transcription	iPS-20b Cell Line	embryonic stem cell
8	chr5:15601800-15610000	Weak transcription	HUES6 Cell Line	embryonic stem cell
9	chr5:15602400-15610400	Weak transcription	H1 Cell Line	embryonic stem cell
10	chr5:15602600-15609000	Weak transcription	Fetal Stomach	stomach
11	chr5:15602800-15620600	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
12	chr5:15605200-15620000	Weak transcription	HSMM	muscle
13	chr5:15605200-15620800	Weak transcription	HSMMtube	muscle
14	chr5:15605400-15609000	Weak transcription	Left Ventricle	heart
15	chr5:15605400-15620600	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
16	chr5:15605400-15621000	Weak transcription	Aorta	Aorta
17	chr5:15606200-15610800	Enhancers	Fetal Heart	heart
18	chr5:15606400-15607600	Enhancers	Brain Angular Gyrus	brain
19	chr5:15606400-15607600	Enhancers	Brain Hippocampus Middle	brain
20	chr5:15606400-15607600	Enhancers	Ovary	ovary
21	chr5:15606600-15609000	Weak transcription	Brain Substantia Nigra	brain
22	chr5:15606600-15609600	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
23	chr5:15606600-15610400	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
24	chr5:15607000-15607600	Enhancers	Brain Inferior Temporal Lobe	brain
25	chr5:15607000-15609800	Weak transcription	Right Atrium	heart
26	chr5:15607000-15613600	Weak transcription	Fetal Muscle Leg	muscle
27	chr5:15607200-15608000	Enhancers	Brain Cingulate Gyrus	brain
28	chr5:15607200-15609000	Weak transcription	Brain Anterior Caudate	brain
29	chr5:15607400-15610000	Weak transcription	HUVEC	blood vessel
30	chr5:15607400-15612800	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
31	chr5:15607400-15614800	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
32	chr5:15607400-15621400	Weak transcription	Fetal Adrenal Gland	Adrenal Gland

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links