Variant report

Variant	rs55642616
Chromosome Location	chr15:78686531-78686532
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr15:78686256..78688855-chr15:78690068..78692853,2	K562	blood:

Extended variants
information (count: 18 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:13)

rs_ID	r²[population]
rs2009293	0.96[AMR][1000 genomes];0.89[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs4304991	0.83[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs4503760	0.86[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs4887049	0.95[AMR][1000 genomes];0.89[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs4887050	0.85[AFR][1000 genomes];0.95[AMR][1000 genomes];0.89[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs4887052	0.88[AMR][1000 genomes];0.88[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs55832521	0.83[EUR][1000 genomes]
rs62010378	0.88[EUR][1000 genomes]
rs62010380	0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs62010386	0.91[AMR][1000 genomes];0.86[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs62010387	0.88[AMR][1000 genomes];0.86[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs7179171	0.85[AMR][1000 genomes];0.84[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs8042381	0.90[AMR][1000 genomes];0.89[EUR][1000 genomes];0.93[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	nsv529491	chr15:77932659-78751516	Genic enhancers Bivalent Enhancer Enhancers Weak transcription Strong transcription Flanking Active TSS Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	80 gene(s)	inside rSNPs	diseases
2	nsv917303	chr15:78491050-79205255	Enhancers Genic enhancers Weak transcription Flanking Active TSS Strong transcription Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	122 gene(s)	inside rSNPs	diseases
3	nsv833063	chr15:78605215-78754945	Weak transcription Active TSS Transcr. at gene 5' and 3' Bivalent Enhancer Enhancers Genic enhancers Strong transcription Flanking Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	23 gene(s)	inside rSNPs	diseases
4	nsv1052910	chr15:78608637-78707049	Bivalent Enhancer Bivalent/Poised TSS Flanking Active TSS Genic enhancers Enhancers Flanking Bivalent TSS/Enh Weak transcription Active TSS Transcr. at gene 5' and 3' Strong transcription ZNF genes & repeats	TF binding region CpG island Chromatin interactive region	5 gene(s)	inside rSNPs	diseases
5	nsv1627	chr15:78683761-78728604	Enhancers Bivalent Enhancer Weak transcription Active TSS Flanking Active TSS Strong transcription Bivalent/Poised TSS ZNF genes & repeats Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region	6 gene(s)	inside rSNPs	n/a

No data

Chromatin state (count:22 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:78667600-78704400	Weak transcription	Lung	lung
2	chr15:78681800-78688800	Weak transcription	Spleen	Spleen
3	chr15:78682200-78687400	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
4	chr15:78682200-78687400	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
5	chr15:78682200-78687400	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
6	chr15:78682200-78687600	Weak transcription	H9 Cell Line	embryonic stem cell
7	chr15:78682400-78687000	Weak transcription	H1 Cell Line	embryonic stem cell
8	chr15:78683800-78687400	Weak transcription	Placenta	Placenta
9	chr15:78684800-78686600	Weak transcription	Fetal Intestine Large	intestine
10	chr15:78685200-78686600	Weak transcription	HUES64 Cell Line	embryonic stem cell
11	chr15:78685200-78687200	Enhancers	Rectal Mucosa Donor 31	rectum
12	chr15:78685200-78687400	Weak transcription	Cortex derived primary cultured neurospheres	brain
13	chr15:78685200-78687400	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
14	chr15:78686000-78688600	Enhancers	HUES6 Cell Line	embryonic stem cell
15	chr15:78686000-78688600	Enhancers	ES-UCSF4 Cell Line	embryonic stem cell
16	chr15:78686200-78686800	Enhancers	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
17	chr15:78686200-78687200	Enhancers	ES-WA7 Cell Line	embryonic stem cell
18	chr15:78686200-78687200	Enhancers	HUES48 Cell Line	embryonic stem cell
19	chr15:78686200-78687800	Enhancers	iPS-20b Cell Line	embryonic stem cell
20	chr15:78686200-78688400	Enhancers	ES-I3 Cell Line	embryonic stem cell
21	chr15:78686400-78688400	Enhancers	iPS-18 Cell Line	embryonic stem cell
22	chr15:78686400-78689400	Enhancers	iPS-15b Cell Line	embryonic stem cell

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links