Variant report

Variant	rs12188935
Chromosome Location	chr5:89859089-89859090
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

TF binding
region (count:0)
CpG islands
(count:0)
Chromatin interactive
region (count:12)
LncRNA
region (count:0)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

No data

(count:12 , 50 per page) page: 1

No.	Distal block	Cell Line	Cell type
1	chr5:89768019..89770611-chr5:89858003..89859643,2	MCF-7	breast:
2	chr5:89703769..89706239-chr5:89858612..89861256,3	MCF-7	breast:
3	chr5:89768826..89771669-chr5:89856234..89860073,3	K562	blood:
4	chr5:89854731..89856596-chr5:89856787..89860606,4	K562	blood:
5	chr5:89856963..89860302-chr5:89865083..89868215,3	MCF-7	breast:
6	chr5:89857832..89860192-chr5:90676540..90678768,2	K562	blood:
7	chr5:89855529..89859468-chr5:89877001..89881365,3	MCF-7	breast:
8	chr5:89854805..89859362-chr5:89860971..89864483,4	K562	blood:
9	chr5:89844676..89846653-chr5:89857905..89859609,2	K562	blood:
10	chr5:89829601..89833585-chr5:89854929..89859978,5	MCF-7	breast:
11	chr5:89824628..89827035-chr5:89857700..89861051,3	K562	blood:
12	chr5:89752607..89755470-chr5:89857714..89859860,2	MCF-7	breast:

No data

Variant related genes	Relation type
ENSG00000113369	Chromatin interaction
ENSG00000113356	Chromatin interaction
ENSG00000176018	Chromatin interaction
ENSG00000255647	Chromatin interaction
ENSG00000176055	Chromatin interaction
ENSG00000153140	Chromatin interaction
ENSG00000164199	Chromatin interaction

Extended variants
information (count: 19 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:11)

rs_ID	r²[population]
rs10514332	1.00[ASN][1000 genomes]
rs12189405	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs16868864	1.00[ASN][1000 genomes]
rs17543819	1.00[ASN][1000 genomes]
rs17621093	1.00[ASN][1000 genomes]
rs17621772	1.00[ASN][1000 genomes]
rs17622455	1.00[ASN][1000 genomes]
rs67124431	1.00[ASN][1000 genomes]
rs6869935	1.00[ASN][1000 genomes]
rs73193258	1.00[ASN][1000 genomes]
rs764212	1.00[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:8 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1021142	chr5:89102893-89897826	Active TSS Weak transcription Enhancers Bivalent Enhancer Strong transcription Flanking Active TSS Genic enhancers Bivalent/Poised TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	55 gene(s)	inside rSNPs	diseases
2	nsv537804	chr5:89102893-89897826	Enhancers Weak transcription Active TSS Flanking Active TSS Strong transcription Genic enhancers ZNF genes & repeats Bivalent Enhancer Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	55 gene(s)	inside rSNPs	diseases
3	nsv432750	chr5:89410113-90137144	Enhancers Weak transcription Strong transcription Active TSS Flanking Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Genic enhancers Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	50 gene(s)	inside rSNPs	diseases
4	nsv432751	chr5:89457044-90090444	Weak transcription Enhancers Active TSS Flanking Bivalent TSS/Enh Strong transcription Flanking Active TSS ZNF genes & repeats Bivalent Enhancer Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	50 gene(s)	inside rSNPs	diseases
5	nsv529544	chr5:89523963-90412409	Weak transcription Enhancers Active TSS Strong transcription Flanking Bivalent TSS/Enh Flanking Active TSS ZNF genes & repeats Genic enhancers Bivalent/Poised TSS Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	58 gene(s)	inside rSNPs	diseases
6	nsv882365	chr5:89770768-89882618	Flanking Active TSS Genic enhancers Enhancers Weak transcription Strong transcription Flanking Bivalent TSS/Enh Active TSS Bivalent/Poised TSS Bivalent Enhancer ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region miRNA target site	13 gene(s)	inside rSNPs	diseases
7	nsv882366	chr5:89826726-89894564	Bivalent/Poised TSS Bivalent Enhancer Weak transcription Enhancers Flanking Active TSS Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Strong transcription Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region	7 gene(s)	inside rSNPs	diseases
8	nsv933668	chr5:89854253-89999672	Strong transcription Enhancers Weak transcription Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Flanking Active TSS Genic enhancers Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region	9 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	chr5:89855200-89871000	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
2	chr5:89856200-89860400	Enhancers	ES-I3 Cell Line	embryonic stem cell
3	chr5:89856400-89859600	Flanking Active TSS	HUES48 Cell Line	embryonic stem cell
4	chr5:89856400-89859800	Enhancers	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
5	chr5:89856600-89859800	Flanking Active TSS	iPS-20b Cell Line	embryonic stem cell
6	chr5:89856600-89860200	Enhancers	ES-UCSF4 Cell Line	embryonic stem cell
7	chr5:89856600-89860400	Enhancers	iPS-15b Cell Line	embryonic stem cell
8	chr5:89856800-89860000	Enhancers	HUES6 Cell Line	embryonic stem cell
9	chr5:89858000-89859600	Flanking Active TSS	HUES64 Cell Line	embryonic stem cell
10	chr5:89858000-89859600	Flanking Active TSS	iPS-18 Cell Line	embryonic stem cell
11	chr5:89858200-89859400	Enhancers	iPS DF 6.9 Cell Line	embryonic stem cell
12	chr5:89858400-89859200	Weak transcription	H9 Cell Line	embryonic stem cell
13	chr5:89858400-89859400	Enhancers	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
14	chr5:89858400-89859600	Enhancers	H1 Cell Line	embryonic stem cell
15	chr5:89858400-89859600	Enhancers	Ganglion Eminence derived primary cultured neurospheres	brain
16	chr5:89858400-89860200	Enhancers	H9 Derived Neuron Cultured Cells	ES cell derived
17	chr5:89858600-89859200	Active TSS	Fetal Brain Male	brain
18	chr5:89859000-89859200	Active TSS	Brain Germinal Matrix	brain
19	chr5:89859000-89859200	Active TSS	Fetal Brain Female	brain
20	chr5:89859000-89859800	Enhancers	Cortex derived primary cultured neurospheres	brain
21	chr5:89859000-89861600	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived

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