Variant report

Variant	rs6888758
Chromosome Location	chr5:5208254-5208255
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 5 )
Associated
traits (count: 1 )

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

rs_ID	r²[population]
rs1366163	1.00[YRI][hapmap]
rs4702245	1.00[YRI][hapmap]

Variant overlapped rSNPs/rCNVs (count:3 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1024784	chr5:4980979-5391231	Weak transcription Enhancers Strong transcription ZNF genes & repeats Flanking Active TSS Active TSS 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	17 gene(s)	inside rSNPs	diseases
2	nsv1032719	chr5:5102763-5387406	Weak transcription Enhancers Strong transcription Flanking Bivalent TSS/Enh Flanking Active TSS Genic enhancers ZNF genes & repeats Active TSS Bivalent/Poised TSS Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases
3	nsv537621	chr5:5102763-5387406	Enhancers Weak transcription Flanking Active TSS Bivalent Enhancer Genic enhancers Strong transcription ZNF genes & repeats Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs6888758	C17orf60	trans	lymphoblastoid	seeQTL

Chromatin state (count:14 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr5:5185200-5262800	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
2	chr5:5193800-5219000	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
3	chr5:5196000-5209200	Weak transcription	Fetal Kidney	kidney
4	chr5:5199000-5240000	Weak transcription	H9 Cell Line	embryonic stem cell
5	chr5:5199800-5228200	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
6	chr5:5200200-5252800	Weak transcription	iPS-20b Cell Line	embryonic stem cell
7	chr5:5200800-5208600	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
8	chr5:5201400-5209200	Weak transcription	Ovary	ovary
9	chr5:5201400-5223000	Weak transcription	HUES6 Cell Line	embryonic stem cell
10	chr5:5201400-5226000	Weak transcription	ES-I3 Cell Line	embryonic stem cell
11	chr5:5202600-5240200	Weak transcription	HUES48 Cell Line	embryonic stem cell
12	chr5:5204800-5209200	Weak transcription	Fetal Muscle Leg	muscle
13	chr5:5205400-5222400	Weak transcription	HUES64 Cell Line	embryonic stem cell
14	chr5:5206000-5209000	Weak transcription	NH-A	brain

Quick Search:

Input of quick search could be:

dbSNP/dbVar ID: rs12345 /nsv7879
a single nucleotide as 0-based coordinates: chr1:12345
chromosomal regions: chr1:12345-34567

what's new

Quick links