Variant report

Variant	rs2702562
Chromosome Location	chr4:15162725-15162726
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr4:15159017..15163958-chr4:15165581..15171575,5	MCF-7	breast:
2	chr4:15162317..15164021-chr4:15166748..15168728,2	K562	blood:
3	chr4:15004819..15007479-chr4:15162088..15163915,2	MCF-7	breast:
4	chr4:15162317..15164560-chr4:15166512..15168728,2	K562	blood:
5	chr4:15155216..15157160-chr4:15160969..15163702,2	K562	blood:

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-CPEB2-9	chr4:15162417-15162972	NONHSAT095619

Variant related genes	Relation type
ENSG00000137449	Chromatin interaction

Extended variants
information (count: 15 )
Associated
traits (count: 0)

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

rs_ID	r²[population]
rs10021046	0.80[ASN][1000 genomes]
rs1869694	0.84[ASN][1000 genomes]
rs1869695	0.80[ASN][1000 genomes]
rs2604557	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.93[AFR][1000 genomes];0.97[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2702540	0.94[ASN][1000 genomes]
rs28434397	0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3857144	0.90[AMR][1000 genomes];0.97[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs3857145	0.90[AMR][1000 genomes];0.97[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs3899399	0.80[ASN][1000 genomes]
rs59379956	0.84[ASN][1000 genomes]
rs6449104	0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6449105	0.92[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.87[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9685332	0.90[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:2 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	esv3448986	chr4:14928802-15805558	Active TSS Strong transcription Flanking Active TSS Transcr. at gene 5' and 3' Weak transcription Enhancers ZNF genes & repeats Bivalent/Poised TSS Genic enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	52 gene(s)	inside rSNPs	diseases
2	nsv829868	chr4:14964559-15164706	Transcr. at gene 5' and 3' Active TSS Weak transcription Enhancers Strong transcription Flanking Active TSS Bivalent Enhancer Genic enhancers ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	30 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:21 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr4:15151400-15163200	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
2	chr4:15152200-15163200	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
3	chr4:15152200-15164800	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
4	chr4:15152400-15163200	Weak transcription	Aorta	Aorta
5	chr4:15161000-15164800	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
6	chr4:15161000-15166200	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
7	chr4:15161200-15162800	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
8	chr4:15161400-15162800	Weak transcription	HUES48 Cell Line	embryonic stem cell
9	chr4:15161400-15163400	Weak transcription	Brain Hippocampus Middle	brain
10	chr4:15161600-15162800	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
11	chr4:15161600-15163600	Weak transcription	Brain Substantia Nigra	brain
12	chr4:15161800-15163200	Weak transcription	Brain Cingulate Gyrus	brain
13	chr4:15162200-15165000	Enhancers	HUES64 Cell Line	embryonic stem cell
14	chr4:15162400-15164000	Enhancers	ES-UCSF4 Cell Line	embryonic stem cell
15	chr4:15162400-15164000	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
16	chr4:15162400-15164800	Enhancers	Osteobl	bone
17	chr4:15162400-15165200	Enhancers	iPS-18 Cell Line	embryonic stem cell
18	chr4:15162600-15164000	Enhancers	H1 Cell Line	embryonic stem cell
19	chr4:15162600-15164400	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
20	chr4:15162600-15165000	Enhancers	H9 Cell Line	embryonic stem cell
21	chr4:15162600-15165200	Enhancers	HUES6 Cell Line	embryonic stem cell

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