Variant report

Variant	rs10055717
Chromosome Location	chr5:68257906-68257907
allele	A/C
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Transcrition factor	Chromosome Location	Cell Line	Cell type	Cell Stage	Matched TF binding sites
1	CTCF	chr5:68257760-68257910	SK-N-SH_RA	brain:	n/a	n/a
2	RAD21	chr5:68257867-68259608	SK-N-SH	brain:	n/a	chr5:68258886-68258905

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-CCDC125-5	chr5:68257696-68257985	ENSG00000249335.1

Variant related genes	Relation type
ENSG00000250066	TF binding region

Extended variants
information (count: 35 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:34)

rs_ID	r²[population]
rs10035142	0.83[AMR][1000 genomes];0.88[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs10042265	0.88[CEU][hapmap];0.86[CHB][hapmap];0.81[JPT][hapmap];0.84[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs10755226	0.85[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs10805425	0.81[CHB][hapmap];0.81[JPT][hapmap]
rs3922936	0.82[ASN][1000 genomes]
rs3922937	0.82[ASN][1000 genomes]
rs4373240	0.82[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs4443379	0.94[CEU][hapmap];0.95[CHB][hapmap];0.95[JPT][hapmap];0.94[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs4976004	0.84[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs4976007	0.87[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs4976056	0.82[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs4976057	0.82[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs4976058	0.84[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs4976067	0.81[CHB][hapmap];0.81[JPT][hapmap]
rs6449989	0.83[CEU][hapmap];0.92[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs6450000	0.84[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs6873039	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6873113	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6874774	0.82[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs6877507	0.88[CEU][hapmap];0.85[CHB][hapmap];0.81[JPT][hapmap];0.84[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs6877626	0.84[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs6877919	0.84[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs6882278	0.93[CEU][hapmap];0.90[CHB][hapmap];0.80[JPT][hapmap];0.89[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs6894214	0.93[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs7446085	0.84[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs7711962	0.84[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs7712326	0.89[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs7712349	0.87[CEU][hapmap];0.86[CHB][hapmap];0.80[JPT][hapmap];0.82[AMR][1000 genomes];0.84[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs7729300	0.85[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs7732664	0.89[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs7732834	0.84[ASN][1000 genomes]
rs7733298	0.82[ASN][1000 genomes]
rs7733454	0.82[ASN][1000 genomes]
rs7734105	0.88[EUR][1000 genomes];0.87[ASN][1000 genomes]

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

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv830332	chr5:68238288-68282681	Enhancers Weak transcription Active TSS Bivalent Enhancer Flanking Active TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:16 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr5:68246200-68262200	Weak transcription	Esophagus	oesophagus
2	chr5:68249400-68258600	Weak transcription	Right Atrium	heart
3	chr5:68250600-68258400	Weak transcription	Skeletal Muscle Female	skeletal muscle
4	chr5:68250800-68258000	Weak transcription	Fetal Heart	heart
5	chr5:68252200-68258400	Weak transcription	ES-I3 Cell Line	embryonic stem cell
6	chr5:68254400-68258600	Weak transcription	Fetal Kidney	kidney
7	chr5:68254600-68258400	Weak transcription	Fetal Lung	lung
8	chr5:68256400-68259200	Enhancers	Rectal Mucosa Donor 31	rectum
9	chr5:68256600-68258600	Weak transcription	Primary B cells from peripheral blood	blood
10	chr5:68257000-68258600	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
11	chr5:68257800-68258000	Enhancers	Spleen	Spleen
12	chr5:68257800-68258200	Enhancers	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
13	chr5:68257800-68258400	Weak transcription	Small Intestine	intestine
14	chr5:68257800-68258600	Enhancers	Adipose Nuclei	Adipose
15	chr5:68257800-68259200	Enhancers	Breast Myoepithelial Primary Cells	Breast
16	chr5:68257800-68259200	Enhancers	Liver	Liver

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