Variant report

Variant	rs16868864
Chromosome Location	chr5:89918334-89918335
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr5:89908105..89911531-chr5:89917925..89920470,3	K562	blood:
2	chr5:89911565..89913352-chr5:89915615..89918600,2	K562	blood:

Extended variants
information (count: 17 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:12)

rs_ID	r²[population]
rs10514332	0.80[CEU][hapmap];1.00[ASN][1000 genomes]
rs12188935	1.00[ASN][1000 genomes]
rs17543819	0.80[CEU][hapmap];1.00[CHD][hapmap];0.91[GIH][hapmap];0.91[TSI][hapmap];0.88[AMR][1000 genomes];0.88[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17544471	0.80[CEU][hapmap];0.84[EUR][1000 genomes]
rs17544552	0.80[CEU][hapmap];0.87[GIH][hapmap];0.86[MEX][hapmap];0.91[TSI][hapmap];0.84[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs17621093	0.80[CEU][hapmap];1.00[CHD][hapmap];0.91[GIH][hapmap];0.82[MEX][hapmap];0.91[TSI][hapmap];0.88[AMR][1000 genomes];0.88[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17621772	0.85[CEU][hapmap];0.84[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17622455	0.80[CEU][hapmap];1.00[CHD][hapmap];0.86[MEX][hapmap];0.86[TSI][hapmap];1.00[ASN][1000 genomes]
rs67124431	1.00[ASN][1000 genomes]
rs6869935	1.00[CHD][hapmap];1.00[ASN][1000 genomes]
rs73193258	1.00[ASN][1000 genomes]
rs764212	0.80[CEU][hapmap];1.00[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	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
2	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
3	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
4	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
5	nsv531965	chr5:89886550-90145002	Weak transcription Enhancers Active TSS Strong transcription ZNF genes & repeats Genic enhancers Flanking Active TSS Transcr. at gene 5' and 3' Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region	9 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:22 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr5:89909800-89919600	Weak transcription	HUES6 Cell Line	embryonic stem cell
2	chr5:89909800-89923200	Weak transcription	H9 Cell Line	embryonic stem cell
3	chr5:89909800-89923200	Weak transcription	iPS-15b Cell Line	embryonic stem cell
4	chr5:89909800-89926400	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
5	chr5:89909800-89928800	Weak transcription	Fetal Brain Female	brain
6	chr5:89910000-89927000	Weak transcription	ES-I3 Cell Line	embryonic stem cell
7	chr5:89910000-89928600	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
8	chr5:89914000-89919400	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
9	chr5:89914200-89919400	Weak transcription	iPS-18 Cell Line	embryonic stem cell
10	chr5:89914200-89920800	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
11	chr5:89914200-89927000	Weak transcription	Cortex derived primary cultured neurospheres	brain
12	chr5:89914200-89928600	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
13	chr5:89916800-89925600	Strong transcription	HUES48 Cell Line	embryonic stem cell
14	chr5:89917000-89927000	Strong transcription	iPS-20b Cell Line	embryonic stem cell
15	chr5:89917400-89920600	Strong transcription	H1 Cell Line	embryonic stem cell
16	chr5:89917400-89923200	Strong transcription	H9 Derived Neuron Cultured Cells	ES cell derived
17	chr5:89917400-89926200	Strong transcription	HUES64 Cell Line	embryonic stem cell
18	chr5:89917800-89918400	Strong transcription	ES-UCSF4 Cell Line	embryonic stem cell
19	chr5:89917800-89922000	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
20	chr5:89918000-89950600	Weak transcription	Pancreas	Pancrea
21	chr5:89918200-89924400	Weak transcription	K562	blood
22	chr5:89918200-89925800	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links