Variant report

Variant	rs1555571
Chromosome Location	chr13:95366891-95366892
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr13:95359884..95364398-chr13:95364758..95367708,4	MCF-7	breast:

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-GPR180-1	chr13:95365892-95368197	XLOC_010472
2	lnc-GPR180-1	chr13:95365892-95368199	NR_046514
3	lnc-GPR180-1	chr13:95365892-95368500	ENSG00000227640.2

Variant related genes	Relation type
ENSG00000125285	Chromatin interaction

Extended variants
information (count: 7 )
Associated
traits (count: 0)

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

rs_ID	r²[population]
rs6492734	0.81[EUR][1000 genomes]
rs7982376	0.89[AMR][1000 genomes];0.95[EUR][1000 genomes];0.94[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	esv34004	chr13:94906537-95392644	Enhancers Flanking Active TSS Bivalent Enhancer Strong transcription Weak transcription Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	27 gene(s)	inside rSNPs	diseases
2	nsv832686	chr13:95206742-95400992	Enhancers Weak transcription Active TSS Bivalent Enhancer Strong transcription Bivalent/Poised TSS Flanking Active TSS Genic enhancers Flanking Bivalent TSS/Enh ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	20 gene(s)	inside rSNPs	diseases
3	esv1813549	chr13:95333331-95377127	Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Weak transcription Active TSS Flanking Active TSS Enhancers Transcr. at gene 5' and 3' Genic enhancers ZNF genes & repeats Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
4	nsv826750	chr13:95358502-95368070	Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS Flanking Active TSS Active TSS Enhancers Weak transcription Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
5	nsv1054343	chr13:95362727-95395486	Bivalent/Poised TSS Bivalent Enhancer Enhancers Flanking Bivalent TSS/Enh Active TSS Flanking Active TSS Weak transcription Strong transcription Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:20 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr13:95359000-95368000	Bivalent/Poised TSS	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
2	chr13:95363600-95367000	Active TSS	Brain Anterior Caudate	brain
3	chr13:95363600-95367800	Active TSS	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
4	chr13:95366000-95367000	Flanking Active TSS	Cortex derived primary cultured neurospheres	brain
5	chr13:95366200-95367200	Active TSS	Stomach Mucosa	stomach
6	chr13:95366400-95367000	Flanking Bivalent TSS/Enh	HUES64 Cell Line	embryonic stem cell
7	chr13:95366400-95370200	Weak transcription	Esophagus	oesophagus
8	chr13:95366600-95367000	Flanking Bivalent TSS/Enh	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
9	chr13:95366600-95367000	Active TSS	Fetal Stomach	stomach
10	chr13:95366600-95367200	Bivalent/Poised TSS	iPS-18 Cell Line	embryonic stem cell
11	chr13:95366600-95367600	Active TSS	Ganglion Eminence derived primary cultured neurospheres	brain
12	chr13:95366600-95368800	Flanking Active TSS	H9 Derived Neuron Cultured Cells	ES cell derived
13	chr13:95366800-95367000	Bivalent/Poised TSS	H1 Cell Line	embryonic stem cell
14	chr13:95366800-95367200	Bivalent Enhancer	ES-I3 Cell Line	embryonic stem cell
15	chr13:95366800-95367200	Bivalent/Poised TSS	HUES48 Cell Line	embryonic stem cell
16	chr13:95366800-95367200	Bivalent/Poised TSS	iPS-15b Cell Line	embryonic stem cell
17	chr13:95366800-95367200	Flanking Bivalent TSS/Enh	iPS-20b Cell Line	embryonic stem cell
18	chr13:95366800-95367200	Enhancers	Brain Germinal Matrix	brain
19	chr13:95366800-95368600	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
20	chr13:95366800-95368800	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell

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