Variant report

Variant	rs7707825
Chromosome Location	chr5:178013110-178013111
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr5:178011858..178014216-chr5:178015047..178017974,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000050767	Chromatin interaction

Extended variants
information (count: 10 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:3)

rs_ID	r²[population]
rs4441888	0.83[AFR][1000 genomes];0.95[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs61216284	0.90[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs721142	0.81[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:7 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv948342	chr5:177384542-178168737	Flanking Active TSS Enhancers Active TSS Bivalent Enhancer Strong transcription Weak transcription Bivalent/Poised TSS Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	141 gene(s)	inside rSNPs	diseases
2	nsv1029398	chr5:177502106-178070654	Flanking Active TSS Enhancers Weak transcription Strong transcription Bivalent Enhancer Transcr. at gene 5' and 3' Genic enhancers ZNF genes & repeats Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	136 gene(s)	inside rSNPs	diseases
3	nsv883214	chr5:177876309-178047217	Flanking Active TSS Enhancers ZNF genes & repeats Strong transcription Weak transcription Bivalent Enhancer Genic enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS Active TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
4	nsv1031666	chr5:177988601-178236068	Bivalent/Poised TSS Strong transcription ZNF genes & repeats Active TSS Flanking Active TSS Weak transcription Bivalent Enhancer Enhancers Flanking Bivalent TSS/Enh Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	18 gene(s)	inside rSNPs	diseases
5	nsv883216	chr5:178002325-178025087	Enhancers ZNF genes & repeats Bivalent/Poised TSS Active TSS Weak transcription Flanking Active TSS Bivalent Enhancer Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Strong transcription Genic enhancers	TF binding region CpG island Chromatin interactive region	3 gene(s)	inside rSNPs	diseases
6	esv3425883	chr5:178010406-178014606	Flanking Bivalent TSS/Enh Enhancers Bivalent Enhancer Bivalent/Poised TSS ZNF genes & repeats Weak transcription Strong transcription Genic enhancers Flanking Active TSS Transcr. at gene 5' and 3'	Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
7	esv3335979	chr5:178012283-178013184	Weak transcription ZNF genes & repeats Flanking Bivalent TSS/Enh Strong transcription Bivalent/Poised TSS Bivalent Enhancer Transcr. at gene 5' and 3' Enhancers Genic enhancers	Chromatin interactive region	1 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:23 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr5:178012400-178013200	ZNF genes & repeats	Pancreas	Pancrea
2	chr5:178012800-178013200	Genic enhancers	Cortex derived primary cultured neurospheres	brain
3	chr5:178012800-178013200	Bivalent Enhancer	Fetal Muscle Trunk	muscle
4	chr5:178012800-178013400	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
5	chr5:178012800-178013600	Weak transcription	iPS-18 Cell Line	embryonic stem cell
6	chr5:178012800-178013600	Weak transcription	Dnd41	blood
7	chr5:178012800-178013800	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
8	chr5:178012800-178013800	Weak transcription	HUES6 Cell Line	embryonic stem cell
9	chr5:178012800-178013800	Weak transcription	Osteobl	bone
10	chr5:178012800-178014200	Weak transcription	ES-I3 Cell Line	embryonic stem cell
11	chr5:178012800-178014400	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
12	chr5:178012800-178014800	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
13	chr5:178012800-178014800	Weak transcription	H9 Cell Line	embryonic stem cell
14	chr5:178012800-178014800	Weak transcription	Brain Inferior Temporal Lobe	brain
15	chr5:178012800-178014800	Weak transcription	Monocytes-CD14+_RO01746	blood
16	chr5:178012800-178015000	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
17	chr5:178012800-178015000	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
18	chr5:178012800-178015000	Enhancers	Fetal Stomach	stomach
19	chr5:178012800-178015000	Weak transcription	Lung	lung
20	chr5:178012800-178016600	Weak transcription	Right Atrium	heart
21	chr5:178012800-178016800	Weak transcription	Gastric	stomach
22	chr5:178013000-178013400	Weak transcription	Thymus	Thymus
23	chr5:178013000-178013400	Weak transcription	A549	lung

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links